Investing in the genetics of Scotland’s trout sector – The Fish Site

According to Xelect, the agreement marks the start of the first selective breeding programme for sea-grown rainbow trout (which are often referred to as steelhead) in the UK and is designed to provide Kames with a major boost to the quality of their production faster growing fish, with high survival rates, that thrive in seawater.

The project started with an initial genetic evaluation of Kames broodstock to ensure that the selective breeding programme would be based on a highly diverse population, with strong potential for future gains.

In the next stage, Xelect will combine genetic analysis of the fish (genotypes) with real world performance data (phenotypes). By using the latest breeding programme management techniques and our highly sophisticated software, OptiMate, Xelect can then identify the optimal crosses to provide Kames with major trait improvements every generation, said Xelect programme manager, Lidia de los Rios Perez in a press release.

Were really delighted to be working with Kames. They are an institution in Scottish aquaculture, and whilst our customers are spread all over the world, weve always been committed to developing aquaculture in Scotland too, said Xelects CEO, Ian Johnston.

This is an exciting stage of development for Kames as we launch into the next fifty years with fully integrated production. Partnering with Xelect is an obvious choice as it not only preserves our Scottish provenance but offers access to a great team of specialists dedicated to enhancing our own unique strain of steelhead trout, said Kames managing director, Neil Manchester.

Follow this link:
Investing in the genetics of Scotland's trout sector - The Fish Site

The Genetics That Make One Animal Immortal Have Been Revealed – IFLScience

Immortality exists but to get it, you need to be a jellyfish, not a god or a vampire. Moreover, only one species of cnidarian, Turritopsis dohrnii, is known to have found the secret of eternal life. Geneticists hope comparing T. dorniis DNA with its close relative, T. rubra, will help us understand the aging process and how to evade it.

Turritopsis are warm water jellyfish half a centimeter (0.2 inches) long. At least three species of hydra have the capacity to age backwards like Benjamin Button, going from adult to juvenile stage, before eventually growing up again. However, two of these can only go from the hydra equivalent of adolescent to child; like the victim in some uncensored fairytale, sexual reproduction locks them into adulthood. T. dohrnii, on the other hand, appears able to go from its free-floating adult stage to bottom-living polyp, known as life cycle reversal (LCR), as many times as it wants.

A paper in the journal Proceedings of the National Academy of Sciences provides a comparison of T. dorhnii and T. rubra in the hope the differences will prove enlightening, throwing in a few more distantly related types of cnidarians as well.

Dr Maria Pascual-Torner of Universidad de Oviedo, Spain, and co-authors didnt find any single genetic trick that appears to provide the fountain of youth. Instead, they discovered a wide variety of potential contributors, reporting; We have identified variants and expansions of genes associated with replication, DNA repair, telomere maintenance, redox environment, stem cell population, and intercellular communication.

This polyp of Turritopsis dohrnii is from a colony generated by a single rejuvenated medusa. Image Credit: Maria Pascual-Torner

All of these could eventually prove important, but the study homed in on two significant aspects of T. dohrniis genome absent in its relative. One of these silences the polycomb repressive complexes: 2 families of proteins that regulate gene expression. The other activates pluripotency the capacity of a stem cell to turn into whatever sort of cell it needs to become during life cycle reversal.

Applying these to humans will certainly be a Herculean task if its possible at all. However, while many of T. dorhniis features probably only work in combination, some might provide a few precious extra years of health in more complex creatures, ourselves included.

As the paper notes: Natural selection declines with age. Only in rare cases, such as the orca grandmothers, is there much evolutionary benefit to living long and healthy lives after reproduction ceases. Consequently, nature has done little work to ensure it occurs well have to work out how to make it happen ourselves, with only T. dorhnii to guide us.

Even T. dohrnii does not live forever. Indeed the typical specimen has a much shorter life expectancy than you, this being the sad consequence of a small lifeform with few defenses and tasty to larger jellyfish and fish. Presumably, this is why they have not come to dominate the Earth as we might expect an immortal species to do. Nevertheless, its capacity for rejuvenation makes it theoretically capable of eternal life, something suspected in only one other species and confirmed in none.

See more here:
The Genetics That Make One Animal Immortal Have Been Revealed - IFLScience

The genetics behind why some people get sicker with COVID-19 than others – ABC News

Norman Swan: One of the common questions that Tegan and I get about Covid is why there's so much variation in how people respond to the infection. One answer is in your genes, and there is a massive ongoing study into comparing people's genomes with how COVID-19 has affected them. Dr Gita Pathak is a team leader in what's called the COVID-19 Host Genetics Initiative. Gita is based at Yale University's School of Medicine in the United States.

Gita Pathak: Thank you for inviting me, I really appreciate it.

Norman Swan: So you're not mapping the virus here, you're mapping the people who were infected with the virus to see what happens to them and whether there are specific genes involved in their experience of the virus.

Gita Pathak: That is correct. The goal of the study is to understand human genetics response to the viral infection which we know as COVID-19. We wanted to look at three different outcomes of COVID-19, specifically people who were critically ill from Covid, then people who were hospitalised due to Covid, and people who tested positive for Covid, so the least severe of the three definitions, and which genes might be associated with these three outcomes.

Norman Swan: And how many genomes have you managed to test?

Gita Pathak: 60 studies from 25 countries, and that resulted in close to 3 million individuals' genetic profiles, and we found a total of 23 genes that show an association with COVID-19.

Norman Swan: So, let's take severity, and this is in a European population, by and large, a Caucasian population. Have you found any consistency in genes for severe disease?

Gita Pathak: Yes, so genetic ancestry is different than what someone may identify themselves as, like ethnically or geographically. Mostly we do have genetic ancestry of the European descent, but we also had people who are genetically South Asian, East Asian, African ancestry, and that separate from where they are geographically or what they identify as.

Norman Swan: So this is a bit like 23andMe or Ancestry.com where you send off your genes and you find out that you are 50% Greek and you didn't think you were 50% Greek.

Gita Pathak: Correct. When we are looking at genetic profiles, it's really important to adjust for genetic ancestry and not specifically for what somebody identifies as. Some genetic variation is more common in one ancestry over others, and if we include people from these diverse ancestries, we can pick up these signals much more quickly

Norman Swan: So, for example, it was said in the early part of the pandemic that people of South Asian origin had more severe disease and a higher risk of death. Did that pan out in your study?

Gita Pathak: We did find one of the genetic variants that was more common in South Asian populations relative to other populations, but that is just one variant. Genes tend to perform in a similar way across ancestries. They may vary based on their frequency in different ancestries, and that information helps us capture why one ancestry might be exhibiting a higher response or a softer response, but by and large all the genes we saw, they tend to have a similar effect across all ancestries.

Norman Swan: And what with these genes doing to increase your vulnerability to severe disease?

Gita Pathak: Some of the genes that we found were related to different lung functions. So, for example, we found something called SFTPD which is a lung surfactant protein, and it has already been known to be associated with different pulmonary functions, and there are other studies which have shown that this specific gene has been known with respiratory distress syndrome in different populations.

Norman Swan: And just to explain, surfactant is the fluid, if you like, that lines the tubes of your lungs and keeps them open, and it's what is deficient in premature babies, causing the respiratory disease of the premature baby. So, in other words, a deficiency of this in adults may predispose you, unsurprisingly, to severe disease. The question of course on everybody's lips now is why do some people not seem to catch COVID-19? There's a group of people who appear anecdotally to be resistant. Did you find COVID-19 resistance genes?

Gita Pathak: Not in our work. Depending on how we look at the variant, the varients we find are associated with the COVID-19 outcome, but if there are people who may be on the opposite spectrum of these, so let's say who are not carriers of this, they might be generally resistant to Covid but that specific study we haven't performed, but that's a good question for later.

Norman Swan: And just finally, any therapeutic insights that might direct people towards more effective medications to treat people who've got Covid, or prevent it getting worse?

Gita Pathak: One good thing that we understand from this work is that we now have a good number of genes to specifically focus our efforts into, and now this can lead to efforts of drug repurposing or drug development. Did we find a specific drug? No, but we definitely found several targets that now could be investigated for different drugs.

Norman Swan: Gita, thank you very much for joining us.

Gita Pathak: Thank you so much for having me, I really appreciate it.

Norman Swan: Dr Gita Pathak is a team leader in the COVID-19 Host Genetics Initiative at Yale University's School of Medicine.

See the rest here:
The genetics behind why some people get sicker with COVID-19 than others - ABC News

Ambry Genetics Publishes 43000 Patient Study Showing Combined RNA and DNA Analysis Identifies Patients Who Are High-Risk for Cancer but Would Have…

ALISO VIEJO, Calif.--(BUSINESS WIRE)--Ambry Genetics, a leader in clinical diagnostic testing and a subsidiary of REALM IDx, Inc., announced today the findings of a study that showed paired RNA and DNA genetic testing, conducted at the same time, detected elusive pathogenic variants in 1 of every 950 patients that were missed by DNA testing alone. The findings, published in npj Genomic Medicine, highlight the importance of combining RNA and DNA analysis in hereditary cancer testing to give clinicians and their patients the most accurate and comprehensive genetic data needed to inform patient care and achieve the best outcomes.

According to the National Library of Medicine, as of August 2017, there were approximately 75,000 genetic tests on the market, representing 10,000 unique test types. Unfortunately, many of these DNA-only tests exclude large portions of DNA such as introns, a sequence of DNA that is spliced out before an RNA molecule is translated into a protein. In addition to omitting large portions of introns, DNA-only testing lacks the functional context to determine whether a variant increases cancer risk, which can lead to inconclusive results. These limitations may prevent patients and their families from getting accurate results to inform their preventative or therapeutic care.

Concurrent RNA and DNA testing helps identify more patients at risk by determining if an uncertain result from DNA testing is normal or disease-causing, and expands the range of genetic testing to identify mutations that DNA-only testing misses.

With our +RNAinsight test we were the first company to offer upfront paired DNA and RNA sequencing to give clinicians and their patients the most accurate and comprehensive information about their cancer risk, said Tom Schoenherr, CEO, Ambry Genetics. This study confirms that conducting RNA and DNA testing together is critical to help identify high-risk individuals who would have been missed by DNA-only testing.

Previously, published evidence of the value of RNA sequencing has been limited by studies with small sample sizes and enriched cohorts. This study by Ambry is the largest to examine the impact of paired DNA and RNA analysis in hereditary cancer testing. In the study, tests from 43,524 patients who underwent paired DNA-RNA genetic testing using Ambrys +RNAinsight from March 2019 through April 2020 were examined to determine if the paired sequencing detected more pathogenic variants than DNA testing alone. The analysis identified patients who had disease-causing alterations that DNA testing alone would have misinterpreted. Examining the RNA data resolved variant findings in 549 patients (1 in 79 patients) by providing the required functional data for more accurate interpretation of splicing variants. In addition, the analysis showed that 1 of every 950 patients had a pathogenic deep intronic variant that would not have appeared in DNA testing alone.

The results from the study may underestimate the total clinical impact because some of the patients families who are now eligible for genetic testing were not tested. In addition, the ripple effect created by these updated results extends to past and future patients. These downstream benefits were not quantified in the current study.

This is the largest study of its kind to show the importance of RNA testing in predicting cancer risk, said Carrie Horton, senior clinical research specialist for oncology and first author of the study. Its clear that RNA analysis has the potential to become a standard practice for genetic testing to improve hereditary cancer care.

A webinar, open to the media, genetic counselors, clinicians and other interested parties, will be conducted on Thursday, September 15 at 10 a.m. PT to review the study findings. Registration information is here.

Ambrys +RNAinsight was the first test to provide comprehensive gene coverage for RNA analysis to help classify and detect DNA variants associated with a variety of cancers including breast, ovarian, prostate, colon, pancreatic and uterine. +RNAinsight enables more accurate identification of patients with increased genetic risks for cancer, finds actionable results that may otherwise be missed and decreases the frequency of inconclusive results.

About Ambry Genetics

Ambry Genetics, a subsidiary of REALM IDx, Inc., translates scientific research into clinically actionable test results based upon a deep understanding of the human genome and the biology behind genetic disease. It is a leader in genetic testing that aims to improve health by understanding the relationship between genetics and disease. Its unparalleled track record of discoveries over 20 years, and growing database that continues to expand in collaboration with academic, corporate and pharmaceutical partners, means Ambry Genetics is first to market with innovative products and comprehensive analysis that enable clinicians to confidently inform patient health decisions.

Follow this link:
Ambry Genetics Publishes 43000 Patient Study Showing Combined RNA and DNA Analysis Identifies Patients Who Are High-Risk for Cancer but Would Have...

Considerations for Policymakers to Improve Healthcare through Telegenetics: A Points to Consider Statement of the American College of Medical Genetics…

BETHESDA, Md., Aug. 30, 2022 /PRNewswire/ -- Telemedicine has skyrocketed during the COVID-19 pandemic, but what actions are needed for more patients to have equitable, fair access to genetics services via telegenetics? To address this urgent problem, the Advocacy and Government Affairs Committee of the American College of Medical Genetics and Genomics (ACMG) has just released a new Points to Consider statement that will assist policymakers tasked with improving appropriate, broad access to genetics services via telehealth: "Considerations for Policymakers to Improve Healthcare through Telegenetics: A Points to Consider Statement of the American College of Medical Genetics and Genomics."

"We have seen a dramatic increase in telemedicine use during the COVID-19 pandemic, but research suggests access is not equitable across different population groups," said lead author Heather E. Williams, PhD, MS. "Policy efforts to ensure equitable access to genetics services via telehealth are necessary. We can continue to address disparities by eliminating barriers to accessing the medical genetics workforce."

The statement, the first published by ACMG's Advocacy and Government Affairs (AGA) Committee, is intended to be used by policymakers to consider as they pursue legislative, regulatory, or other policies related to telegenetics or reducing disparities in access to genetic services. It describes telegenetics services, the need for these services, existing barriers to technology access, actions needed to ensure equitable access and the current state of reimbursement for these services.

A few of the specific points to consider include:

The statement concludes that while the COVID-19 pandemic expedited the expanded integration of telemedicine into genetic services, only a concerted effort will ensure that all Americans can benefit from these services. The points discussed in this statement should be viewed as considerations for federal, state and institutional policymakers as well as payers that are tasked with ensuring equitable access to telemedicine, including telegenetics. Improved telehealth policies are necessary to enhance patient care and reduce disparities in accessing genetics healthcare to patients throughout the United States.

About the American College of Medical Genetics and Genomics

Founded in 1991, the American College of Medical Genetics and Genomics (ACMG) is a prominent authority in the field of medical genetics and genomics and the only nationally recognized medical professional organization solely dedicated to improving health through the practice of medical genetics and genomics. The only medical specialty society in the US that represents the full spectrum of medical genetics disciplines in a single organization, the ACMG provides education, resources and a voice for more than 2,500 clinical and laboratory geneticists, genetic counselors and other healthcare professionals. ACMG's mission is to improve health through the clinical and laboratory practice of medical genetics as well as through advocacy, education and clinical research, and to guide the safe and effective integration of genetics and genomics into all of medicine and healthcare, resulting in improved personal and public health. Genetics in Medicine is the official ACMG journal. ACMG's website, http://www.acmg.net, offers resources including policy statements, practice guidelines, and educational programs. The ACMG Foundation for Genetic and Genomic Medicine works to power ACMG educational and public health programs through charitable gifts from corporations, foundations and individuals.

Kathy Moran, MBA[emailprotected]

SOURCE American College of Medical Genetics and Genomics

Link:
Considerations for Policymakers to Improve Healthcare through Telegenetics: A Points to Consider Statement of the American College of Medical Genetics...

You’re in control: Exercise outweighs genetics when it comes to longer life – Study Finds

SAN DIEGO If living into your 90s seems to run in the family, dont just assume that means you will too.Our genetics make us who we are, but new research from the University of California, San Diego finds exercise trumps genes when it comes to promoting a longer life.

You dont need a medical degree to know that forgoing physical activity in favor of stagnation isnt the wisest choice for your health and longevity. But, certain people are genetically predisposed to live longer than others. The research team at UCSD set out to determine if such individuals dont have to move quite as much as the rest of us to live just as long.

The goal of this research was to understand whether associations between physical activity and sedentary time with death varied based on different levels of genetic predisposition for longevity, says lead study author Alexander Posis, M.P.H., a fourth-year doctoral student in the San Diego State University/UC San Diego Joint Doctoral Program in Public Health, in a university release.

This research project began a decade ago. In 2012, as part of the Womens Health Initiative Objective Physical Activity and Cardiovascular Health study (OPACH), study authors began keeping track of the physical activity habits among 5,446 older U.S. women (ages 63 or older). Subjects were tracked up until 2020, and wore a research-grade accelerometer for up to seven days. That device measured how much time they spent moving, the intensity of that physical activity, and their usual amount of sedentary time.

Sure enough, higher levels of light physical activity and moderate-to-vigorous physical activity were associated with a lower risk of dying during the tracking period. Additionally, more time spent sedentary was associated with a higher risk of mortality. Importantly, this observed connection between exercise and a longer life remained consistent even among women determined to have different levels of genetic predisposition for longevity.

Our study showed that, even if you arent likely to live long based on your genes, you can still extend your lifespan by engaging in positive lifestyle behaviors such as regular exercise and sitting less, explains senior study author Aladdin H. Shadyab, Ph.D., assistant professor at the Herbert Wertheim School of Public Health and Human Longevity Science at UC San Diego. Conversely, even if your genes predispose you to a long life, remaining physically active is still important to achieve longevity.

In conclusion, study authors recommend that older women engage in physical activity of any intensity as regularly as possible. Doing so will lower the risk of both various diseases and premature death.

The study is published in the Journal of Aging and Physical Activity.

Read the original post:
You're in control: Exercise outweighs genetics when it comes to longer life - Study Finds

Genetic pattern and demographic history of cutlassfish (Trichiurus nanhaiensis) in South China Sea by the influence of Pleistocene climatic…

Smouse, P. E. & Peakall, R. O. D. Spatial autocorrelation analysis of individual multiallele and multilocus genetic structure. Heredity 82(5), 561573 (1999).

PubMed Article Google Scholar

Liu, J. X., Gao, T. X., Wu, S. F. & Zhang, Y. P. Pleistocene isolation in the Northwestern Pacific marginal seas and limited dispersal in a marine fish, Chelon haematocheilus (Temminck & Schlegel, 1845). Mol. Ecol. 16(2), 275288 (2007).

CAS PubMed Article Google Scholar

Ding, S., Mishra, M., Wu, H., Liang, S. & Miyamoto, M. M. Characterization of hybridization within a secondary contact region of the inshore fish, Bostrychus sinensis, in the East China Sea. Heredity 120(1), 5162 (2018).

CAS PubMed Article Google Scholar

Ashrafzadeh, M. R. et al. Assessing the origin, genetic structure and demographic history of the common pheasant (Phasianus colchicus) in the introduced European range. Sci. Rep. 11(1), 114 (2021).

Article CAS Google Scholar

Caccavo, J. A. et al. Along-shelf connectivity and circumpolar gene flow in Antarctic silverfish (Pleuragramma antarctica). Sci. Rep. 8(1), 116 (2018).

Article CAS Google Scholar

Otwoma, L. M., Reuter, H., Timm, J. & Meyer, A. Genetic connectivity in a herbivorous coral reef fish (Acanthurus leucosternon Bennet, 1833) in the Eastern African region. Hydrobiologia 806(1), 237250 (2018).

Article Google Scholar

Li, H., Lin, H., Li, J. & Ding, S. Phylogeography of the Chinese beard eel, Cirrhimuraena chinensis Kaup, inferred from mitochondrial DNA: A range expansion after the last glacial maximum. Int. J. Mol. Sci. 15(8), 1356413577 (2014).

CAS PubMed PubMed Central Article Google Scholar

Gao, B., Song, N., Li, Z., Gao, T. & Liu, L. Population genetic structure of Nuchequula mannusella (Perciformes: Leiognathidae) population in the Southern Coast of China inferred from complete sequence of mtDNA Cyt b gene. Pak. J. Zool. 51(4), 15271535 (2019).

Article Google Scholar

Qiu, F., Li, H., Lin, H., Ding, S. & Miyamoto, M. M. Phylogeography of the inshore fish, Bostrychus sinensis, along the Pacific coastline of China. Mol. Phylogenet. Evol. 96, 112117 (2016).

PubMed Article Google Scholar

Gu, S. et al. Genetic diversity and population structure of cutlassfish (Lepturacanthus savala) along the coast of mainland China, as inferred by mitochondrial and microsatellite DNA markers. Reg. Stud. Mar. Sci. 43, 101702 (2021).

Google Scholar

Liu, Q. et al. Genetic variation and population genetic structure of the large yellow croaker (Larimichthys crocea) based on genome-wide single nucleotide polymorphisms in farmed and wild populations. Fish. Res. 232, 105718 (2020).

Article Google Scholar

Song, P. et al. Genetic characteristics of yellow seabream Acanthopagrus latus (Houttuyn, 1782) (Teleostei: Sparidae) after stock enhancement in southeastern China coastal waters. Reg. Stud. Mar. Sci. 48, 102065 (2021).

Google Scholar

Ward, R. D. Genetics in fisheries management. Hydrobiologia 420, 191201 (2000).

CAS Article Google Scholar

Liu, X., Guo, Y., Wang, Z. & Liu, C. The complete mitochondrial genome sequence of Trichiurus nanhaiensis (Perciformes: Trichiuridae). Mitochondrial DNA 24(5), 516517 (2013).

CAS PubMed Article Google Scholar

Wang, H. Y., Dong, C. A. & Lin, H. C. DNA barcoding of fisheries catch to reveal composition and distribution of cutlassfishes along the Taiwan coast. Fish. Res. 187, 103109 (2017).

Article Google Scholar

Guo, Y. S., Liu, X. M., Wang, Z. D., Lu, H. S. & Liu, C. W. Isolation and characterization of microsatellite DNA loci from Naihai cutlassfish (Trichiurus nanhaiensis). J. Genet. 93(1), 109112 (2014).

Article Google Scholar

Kwok, K. Y. & Ni, I. H. Reproduction of cutlassfishes Trichiurus spp. from the South China Sea. Mar. Ecol. Prog. Ser. 176, 3947 (1999).

ADS Article Google Scholar

He, L. et al. Demographic response of cutlassfish (Trichiurus japonicus and T. nanhaiensis) to fluctuating palaeo-climate and regional oceanographic conditions in the China seas. Sci. Rep. 4(1), 110 (2014).

Google Scholar

Lin, H. C., Tsai, C. J. & Wang, H. Y. Variation in global distribution, population structures, and demographic history for four Trichiurus cutlassfishes. PeerJ 9, e12639 (2021).

PubMed PubMed Central Article CAS Google Scholar

Funk, W. C., McKay, J. K., Hohenlohe, P. A. & Allendorf, F. W. Harnessing genomics for delineating conservation units. Trends Ecol. Evol. 27(9), 489496 (2012).

PubMed PubMed Central Article Google Scholar

Tautz, D. Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res. 17, 64636471 (1989).

CAS PubMed PubMed Central Article Google Scholar

Templeton, A. R. The, Eve hypotheses: A genetic critique and reanalysis. Am. Anthropol. 95, 5172 (1993).

Article Google Scholar

Van Oosterhout, C., Hutchinson, W. F., Wills, D. P. & Shipley, P. MICRO-CHECKER: Software for identifying and correcting genotyping errors in microsatellite data. Mol. Ecol. Notes 4(3), 535538 (2004).

Article CAS Google Scholar

Frankham, R. Challenges and opportunities of genetic approaches to biological conservation. Biol. Conserv. 143(9), 19191927 (2010).

Article Google Scholar

Sun, P., Shi, Z., Yin, F. & Peng, S. Population genetic structure and demographic history of Pampus argenteus in the Indo-West Pacific inferred from mitochondrial cytochrome b sequences. Biochem. Syst. Ecol. 43, 5463 (2012).

CAS Article Google Scholar

Liu, S. Y. V. et al. Genetic stock structure of Terapon jarbua in Taiwanese waters. Mar. Coast. Fish. 7(1), 464473 (2015).

Article Google Scholar

Song, C. Y., Sun, Z. C., Gao, T. X. & Song, N. Structure analysis of mitochondrial DNA control region sequences and its applications for the study of population genetic diversity of Acanthogobius ommaturus. Russ. J. Mar. Biol. 46(4), 292301 (2020).

CAS Article Google Scholar

Yan, Y. R. et al. Cryptic diversity of the spotted scat Scatophagus argus (Perciformes: Scatophagidae) in the South China Sea: Pre-or post-production isolation. Mar. Freshw. Res. 71(12), 16401650 (2020).

Article Google Scholar

Hartl, D. L., Clark, A. G., & Clark, A. G. Principles of Population Genetics, vol. 116 (Sinauer Associates, 1997).

Wu, R. et al. Study on the nomenclature and taxonomie status of hairtail Trichiurus japonicus from the Chinese coastal waters. Genom. Appl. Biol. 37(9), 37823791 (2018).

Google Scholar

Xu, D. et al. Genetic diversity and population differentiation in the yellow drum Nibea albiflora along the coast of the China Sea. Mar. Biol. Res. 13(4), 456462 (2017).

Article Google Scholar

Wang, W. et al. Genetic diversity and population structure analysis of Lateolabrax maculatus from Chinese coastal waters using polymorphic microsatellite markers. Sci. Rep. 11(1), 111 (2021).

Article CAS Google Scholar

Cheng, Q., Chen, W. & Ma, L. Genetic diversity and population structure of small yellow croaker (Larimichthys polyactis) in the Yellow and East China seas based on microsatellites. Aquat. Living Resour. 32, 16 (2019).

Article Google Scholar

DeWoody, J. A. & Avise, J. C. Microsatellite variation in marine, freshwater and anadromous fishes compared with other animals. J. Fish Biol. 56(3), 461473 (2000).

CAS Article Google Scholar

Song, N., Yin, L., Sun, D., Zhao, L. & Gao, T. Fine-scale population structure of Collichtys lucidus populations inferred from microsatellite markers. J. Appl. Ichthyol. 35(3), 709718 (2019).

Article Google Scholar

Yin, W. et al. Species delimitation and historical biogeography in the genus Helice (Brachyura: Varunidae) in the Northwestern Pacific. Zool. Sci. 26(7), 467475 (2009).

CAS Article Google Scholar

Hewitt, G. The genetic legacy of the Quaternary ice ages. Nature 405(6789), 907913 (2000).

ADS CAS PubMed Article Google Scholar

Yi, M. R. et al. Genetic structure and diversity of the yellowbelly threadfin bream Nemipterus bathybius in the Northern South China Sea. Diversity 13(7), 324 (2021).

CAS Article Google Scholar

Chen, X., Wang, J. J., Ai, W. M., Chen, H. & Lin, H. D. Phylogeography and genetic population structure of the spadenose shark (Scoliodon macrorhynchos) from the Chinese coast. Mitochondrial DNA Part A 29(7), 11001107 (2018).

Article CAS Google Scholar

Huang, W. et al. Genetic diversity and large-scale connectivity of the scleractinian coral Porites lutea in the South China Sea. Coral Reefs 37(4), 12591271 (2018).

ADS Article Google Scholar

Hou, G. et al. Identification of eggs and spawning zones of hairtail fishes Trichiurus (Pisces: Trichiuridae) in Northern South China Sea, using DNA barcoding. Front. Environ. Sci. 9, 703029 (2021).

Article Google Scholar

Yamaguchi, K., Nakajima, M. & Taniguchi, N. Loss of genetic variation and increased population differentiation in geographically peripheral populations of Japanese char Salvelinus leucomaenis. Aquaculture 308, S20S27 (2010).

Article Google Scholar

Neo, M. L., Liu, L. L., Huang, D. & Soong, K. Thriving populations with low genetic diversity in giant clam species, Tridacna maxima and Tridacna noae, at Dongsha Atoll, South China Sea. Reg. Stud. Mar. Sci. 24, 278287 (2018).

Google Scholar

Jeanmougin, F., Thompson, J., Gouy, M., Higgins, D. & Gibson, T. Multiple sequence alignment with Clustal X. Trends Biochem. Sci. 23, 403405 (1998).

CAS PubMed Article Google Scholar

Librado, P. & Rozas, J. DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25(11), 14511452 (2009).

CAS PubMed Article Google Scholar

Kumar, S., Stecher, G., Li, M., Knyaz, C. & Tamura, K. MEGA X: Molecular evolutionary genetics analysis across computing platforms. Mol. Biol. Evol. 35, 15471549 (2018).

CAS PubMed PubMed Central Article Google Scholar

Zhang, D. et al. PhyloSuite: An integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies. Mol. Ecol. Resour. 20(1), 348355 (2020).

PubMed Article Google Scholar

Excoffier, L. & Lischer, H. E. Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Resour. 10(3), 564567 (2010).

PubMed Article Google Scholar

Tajima, F. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123, 585595 (1989).

CAS PubMed PubMed Central Article Google Scholar

Fu, Y. X. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 147(2), 915925 (1997).

CAS PubMed PubMed Central Article Google Scholar

Drummond, A. J., Suchard, M. A., Xie, D. & Rambaut, A. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol. Biol. Evol. 29(8), 19691973 (2012).

Visit link:
Genetic pattern and demographic history of cutlassfish (Trichiurus nanhaiensis) in South China Sea by the influence of Pleistocene climatic...

7 Ways Psychology Can Help Save the Planet – Everyday Health

Climate scientists have long agreed that the climate is warming and becoming more volatile, and human activities, especially the burning of fossil fuels, are the main drivers behind these planetary changes. (NASA has a lot more details on this consensus.) Yet human behavior has been slow to change.

Psychologists study and attempt to understand what motivates people and how we think, feel, and act as groups and individuals. This knowledge can be put to use to change the behaviors that are ultimately problematic for our planet.

Yet, according to areport published in February 2022 by the American Psychological Association (APA), only a small number of psychologists include addressing climate change in their work.

The organization hopes to change that with its action plan for psychologists to address the climate crisis, the report notes.

A panel held in August at the APA 2022, the organizations annual meeting, brought together researchers, experts, and thought leaders to discuss how psychology can change human behavior around climate change.

Distress is a normal part of moving to action, saidChristie Manning, PhD, an assistant professor of environmental studies and psychology at Macalester College in St. Paul, Minnesota, during the discussion. Individuals have the power to take these steps. We need to encourage them and help them.

Dr. Manning said that to fight climate change, it will take systemic change, infrastructure change, and policy change. These things can happen if people join the activist community, hold politicians accountable when they promise movement on climate change, and contact elected officials to ask for new policies.

Here are seven ways Manning and the other panelists said psychology can be part of the solution, as well as what you can do.

Cognitive biases are ways of thinking and reasoning that dont necessarily conform to logic, according to the Encyclopedia of Behavioral Neuroscience. They happen when our brains try to process information to make sense of something, and they influence our judgment, decision-making, and behavior. For example, you search for information that confirms what you already believe about something and accept that over other research or expert opinion on the topic.

According toGale M. Sinatra, PhD, the Stephen H. Crocker Professor of Education and an associate dean of research at the Rossier School of Education at University of Southern California in Los Angeles, this can apply to climate science, too. We have some cognitive biases in how we reason, she said during the panel.

Cognitive bias theory, for example, explains why people have trouble connecting human behaviors to the impact it has on the environment,research, such as a study in the May 2018 Frontiers in Psychology, has found.

If you feel like new climate policies will cause changes to your way of living, you might have a strong emotional reaction opposing the policies. The emotional reaction can cause you to ignore the facts and data presented.

Psychology can help us unpack thinking patterns and challenge these biases.

How to be part of the solution We all have cognitive biases, whether we realize them or not. Take a step back to stop and check if and when yours are showing up. Use critical thinking to challenge reactions that might be emotionally based, Sinatra recommended during an interview after the meeting. This especially applies when sharing information online.

Values clarification is a technique often used in therapy to help a person get a better understanding of their own values. Once someone is clear about their values, they can then examine how their choices and behavior match them (and when a person's actions and behaviors align with whats important to them, that ultimately leads to emotional well-being).

Derrick Sebree Jr., PsyD, the MA program director and a core faculty member at Michigan School of Psychology in Farmington Hills, says he believes values clarification exercises can be used in connection with climate change. If people value protecting nature and the environment, values clarification exercises can help them make sure their actions and behaviors are contributing to that, he says.

How to be part of the solution Think about your personal values. How do they relate to the way you feel about the environment and whats happening with climate change? Once you get clear on whats important to you, you can look for ways to help, Dr. Sebree says.

Taking action actually reduces your anxiety regarding climate change, Sinatra says. It can be both helpful to the cause and helpful to yourself.

The way you present different choices can affect peoples likelihood of choosing a particular option, saysSusan Clayton, PhD, a professor of psychology at the College of Wooster in Ohio. Psychologists refer to the concept as choice architecture.

A meta-analysis published in December 2021 in the Proceedings of the National Academy of Sciences (PNAS) concluded that choice architecture is an effective tool for behavior changes, both personally and socially.

This can be applied when the goal is to get people to choose a more eco-friendly option.

One example is menu design. Its well known that meals with meat on average come with a higher carbon footprint than plant-based diet options, Dr. Clayton says. If you put the vegetarian option higher on the list, people are more likely to choose it, she explains.

How to be part of the solution You can also try using choice architecture to encourage friends or family to select environmentally friendly options, such as buying produce from a local farmers market instead of the grocery store. If your work requires travel, ask your manager about presenting green hotel options first when employees are booking accommodations.

At the APA panel,Katharine Hayhoe, PhD, the chief scientist at the Nature Conservancy and a professor of political science at Texas Tech University in Lubbock, discussed the role of psychological distance and psychological proximity in prompting behavior change.

If something has psychological distance (meaning people feel mentally removed from whats happening) it might seem worrisome, but not urgent, she said. Psychological proximity, on the other hand, means an issue feels urgent in the here and now, she explained.

Data suggest that many Americans feel psychological distance from climate change; while 70 percent of Americans are worried about climate change and 80 percent of young people are worried, half feel hopeless and dont know where to start, and only 8 percent are activated (meaning they are taking a meaningful action to address the issue), according to data collected by the Yale School of the Environment and a 2020 poll by the United States Conference of Mayors.

We dont understand the risks of inaction to us and the rewards of action to us, she said. So, theres room for psychological proximity to boost the sense of urgency around the problem, and ultimately increase the likelihood of making behavior changes that are good for the planet, she explained.

How to be part of the solution Do you live in a place where youve observed environmental changes? Have you traveled somewhere where you can see the impacts of climate change? Talk with people around you and share it on social media. Hearing about the firsthand experiences of people we know can help make an issue feel closer to us. Also, take those steps yourself to educate yourself.

Psychologists know that people are more receptive to some kinds of messages than others, so tailoring climate change messaging to different audiences has the potential to move behavior.

It does matter who your audience is, Clayton says. If people dont see climate change as a problem, the message needs to try to address that; if an audience already sees climate change as a problem, a sense of hope is helpful because if people feel like actions can make a difference, theyre more likely to do something, he explains.

Sebree says he uses personal stories to help people connect with the seriousness of climate change. I talk about what my family has experienced in terms of going through some of the impacts of climate change, such as flooding in Michigan. The anecdote allows people to extend that to themselves.

How to be part of the solution If youre talking to someone in your life about climate change, Clayton recommends speaking to the values and concerns of the person youre talking to. For example, if the person youre talking to goes fishing as a hobby, you might talk about how the climate crisis will impact their favorite fishing locations. If they have a child who is an important part of their life, you might connect climate change to what the child could experience in the future.

Peoples behavior can be influenced by what they think others around them, or others in a larger group, are doing or not doing (or whether others approve or disapprove), research shows. This applies to behavior that affects climate change and climate action, too, Clayton says.

Psychologists can help by advising advocacy groups and policy leaders on how to get the message out that people are taking part in climate action. The more people see others helping with these efforts, the more likely they are to join.

How to be part of the solution You can help in your community by being a good example and telling others about steps you are taking, Clayton says. If you signed a petition for climate change legislation or called your local congressperson to ask them to vote yes or no on a bill for climate action, talk about having done so with friends and family.

Nature-based therapy, or eco-therapy, is a technique that some psychologists use to help boost mental health, according to theAPA. They might recommend someone spend more time outdoors to do things like hiking or forest bathing, Sebree says.

Aside from helping to improve symptoms of anxiety and depression, being in nature can also cause people to feel more connected with their environment something Sebree said builds personal relevance to the climate crisis. (It helps boost that psychological proximity Dr. Hayhoe was talking about.)

The more someone feels connected to the environment, the more likely they are to make choices to protect the environment, Sebree says.

How to be part of the solution Try it yourself. Eco-therapy, or simply spending time in nature, can serve as a reminder that humans are also part of nature, and we need to protect our habitat. If youre already an avid nature adventurer, try to encourage someone in your life to come with you.

Read the original here:
7 Ways Psychology Can Help Save the Planet - Everyday Health

The Fall of Nature – Quillette

And science, we should insist, better than any other discipline, can hold up to its students and followers an ideal of patient devotion to the search for objective truth, with vision unclouded by personal or political motive.~Sir Henry Hallett Dale

Although the modern prestige bestowed upon science is laudable, it is not without peril. For as the ideological value of science increases, so too does the threat to its objectivity. Slogans and hashtags can quickly politicize science, and scientists can be tempted to subordinate the pursuit of the truth to moral or political ends as they become aware of their own prodigious social importance. Inconvenient data can be suppressed or hidden and inconvenient research can be quashed. This is especially true when one political tribe or faction enjoys disproportionate influence in academiaits members can disfigure science (often unconsciously) to support their own ideological preferences. This is how science becomes more like propaganda than empiricism, and academia becomes more like a partisan media organization than an impartial institution.

An editorial in Nature Human Behavior provides the most recent indication of just how bad things are becoming. It begins, like so many essays of its kind, by announcing that, Although academic freedom is fundamental, it is not unbounded. When the invocation of a fundamental freedom in one clause is immediately undermined in the next, we should be skeptical of whatever follows. But in this case, the authors are taking issue with a view very few people actually hold. At minimum, most academics will readily accept that scientific curiosity should be constrained by ethical concerns about research participants.

Unfortunately, the authors then announce that they also wish to apply these well-established ethics frameworks to humans who do not participate directly in the research. They are especially concerned that people can be harmed indirectly by research that inadvertently stigmatizes individuals or human groups. Such research may be discriminatory, racist, sexist, ableist, or homophobic and may provide justification for undermining the rights of specific groups, simply because of their social characteristics. Because of these concerns, the Springer Nature community has worked up a new set of research guidelines intended to address these potential harms, explicitly applying ethics frameworks for research with human participations to any academic publication.

In plain language, this means that from now on, the journal will reject articles that might potentially harm (even inadvertently) those individuals or groups most vulnerable to racism, sexism, ableism, or homophobia. Since it is already standard practice to reject false or poorly argued work, it is safe to assume that these new guidelines have been designed to reject any article deemed to pose a threat to disadvantaged groups, irrespective of whether or not its central claims are true, or at least well-supported. Within a few sentences, we have moved from a banal statement of the obvious to draconian and censorious editorial discretion. Editors will now enjoy unprecedented power to reject articles on the basis of nebulous moral concerns and anticipated harms.

Imagine for a moment that this editorial were written, not by political progressives, but by conservative Catholics, who announced that any research promoting (even inadvertently) promiscuous sex, the breakdown of the nuclear family, agnosticism and atheism, or the decline of the nation state would be suppressed or rejected lest it inflict unspecified harm on vaguely defined groups or individuals. Many of those presently nodding along with Natures editors would have no difficulty identifying the subordination of science to a political agenda. One need not argue that opposing racism or promoting the nuclear family are dubious goals in order to also worry about elevating them over free inquiry and the dispassionate pursuit of understanding.

Suppose someone discovers that men are more likely than women to be represented at the tail end of the mathematical ability distribution and therefore more likely to be engineers or physics professors. Does such a finding constitute sexism, if only by implication? Does it stigmatize or help to negatively stereotype women? Are the authors of the editorial contending that journals should not publish an article that contains these data or makes such an argument? The very vagueness of these new guidelines allowsor rather requiresthe political biases of editors and reviewers to intrude into the publishing process.

As the editorial proceeds, it becomes steadily more alarming and more explicitly political. Advancing knowledge and understanding, the authors declare, is also a fundamental public good. In some cases, however, potential harms to the populations studied may outweigh the benefit of publication. Such as? Any material that undermines the dignity or rights of specific groups or assumes that a human group is superior or inferior over another simply because of a social characteristic will be sufficient to raise ethics concerns that may require revisions or supersede the value of publication.

But no serious scientist or scholar contends that some groups are superior or inferior to others. Those who write candidly about sex and population differences, such as David Geary or Charles Murray, routinely preface discussion of their findings with the unambiguous declaration that empirical differences do not justify claims of superiority or inferiority. Nevertheless, the editorial is a warrant to attack, silence, and suppress research that finds differences of any social significance between sexes or populations, regardless of whether or not such differences do in fact exist. The empirical claim that men are overrepresented vis--vis women at the extreme right tail of the distribution of mathematical ability can therefore be rejected on the basis that it may be understood to imply a claim of male superiority even if no such claim is made, and even if it is explicitly disavowed.

Sensing the dangerous and censorious path they are walking, the authors pause to offer a sop to those of us who still believe in the importance of academic freedom:

This is not at all reassuring. Asking ethicists to assess the wisdom of publishing a journal article is as antithetical to the spirit of science as soliciting publication advice from a religious scholar. Who are these ethics experts and advocacy groups anyway? I am skeptical of ethical expertise. I am especially skeptical of ethical expertise from an academy more inclined to reward conclusions that support progressive preferences than those that emerge from empirical study and rational thought. I am more skeptical still of advocacy groups, which exist to pursue a political agenda, and are therefore, by their very nature, a good deal more interested in what is useful than what is true.

Imagine the outcry on the Left if a journal announced it would be consulting pro-life advocates before publishing an article about the effects of abortion on wellbeing. Or if it decided to consult conservative evangelicals when evaluating an article about the effects of adoption by homosexual couples. The journal is effectively announcing the employment of sensitivity readers, who it can safely be assumed, will invariably recommend the risk-averse option of suppression whenever the possibility of controversy arises.

Before they set out their new guidelines, the authors take a moment to self-flagellate, with a cookie cutter denunciation of science for its dismal history of inequality and discrimination. Still, with this guidance, we take a step toward countering this, they say as if it were an act of atonement. I find that I am more positive about the science of the past than the editorials authors, and more gloomy about the social-justice-oriented science of the future they are proposing. Yes, humans are flawed and fallible and always will be, so we must accept that science will forever be an imperfect endeavor. But the best way to correct its imperfections is not to demand the capitulation of science to ideology, but to remain alive to our biases and devise mechanisms that can compensate for them. Trying to counter past bias by replacing it with a new kind of bias is self-evidently nonsensicallike trying to conquer alcohol consumption by replacing beer with hard liquor.

Predictably, the proposed editorial guidelines focus on the needs and sensitivities of groups perceived to be marginalized and identified by race, ethnicity, class, sex, and sexual orientation, religious and political beliefs, age and disability. And naturally, the guidelines themselves are as vague and troubling as the rest of the editorial. The authors reiterate that they want to extend protections for research participants across the entire publishing process. Harms, they note, can also arise indirectly, as a result of the publication of a research project or a piece of scholarly communicationfor instance, stigmatization of a vulnerable human group or potential use of the results of research for unintended purposes (e.g., public policies that undermine human rights or misuse of information to threaten public health).

Like almost everything else in the editorial, this claim is unhelpfully ambiguous and politically contentious. Furthermore, possible real-world harms (or benefits) that result from the publication of academic papers are incredibly, perhaps prohibitively, difficult to anticipate and measure. Would a paper that finds homosexual men to be more promiscuous on average than heterosexual men result in the stigmatization of or harm to a vulnerable human group? The answer would depend in no small part upon the respondents view of homosexuality and how capacious or otherwise their definitions of stigmatization and harm are.

The notion that homosexual men are more promiscuous than straight men might produce some negative stereotypes about the former. But it could also raise awareness of the disproportionate dangers posed to homosexual mens sexual health by unprotected promiscuity, which might in turn lead to a reduction in the rate of sexually transmitted infections. We simply do not know. This is precisely why peer review should only consider the plausibility and theoretical importance of articles, not their unknowable political and moral effects.

The new guidelines state that even if a project were to be reviewed and approved by appropriate committees, editors reserve the right to request modifications or even refuse publication or retract post-publication if it contains content that:

Or:

Or:

No examples are adduced, of course, so it is difficult to know what kind of content would commit these retractable iniquities. Could a discussion of group differences in cognitive ability reasonably be perceived to undermine the rights and dignities of an individual or human group? Would an exploration of sex differences in homicide rates? Would an analysis of political differences in cognitive rigidity? Would a test of the association between religiosity and pro-sociality? And who is to be the judge of what is and is not reasonable? And what does or does not constitute undermining?

Ambiguity is piled upon ambiguity to expand the capricious purview of the censor. It does not require clairvoyance to predict that these criteria will not be consistently applied. It may be considered racist to point out that a disproportionate number of crimes are committed by black Americans, but it will surely not be considered misandrist to point out that a disproportionate number of crimes are committed by American males. Even those who work ardently for the triumph of progressive ideas and values should shudder. Not only will these guidelines further degrade the already embattled prestige of science, but they offer remarkable deference to the idiosyncratic moral concerns of editors and reviewers which are subject to change at short notice. As radical feminists have recently discovered, those who sit within the progressive Overton window today may find themselves thrust outside of it tomorrowvictims of a censorious system they thought they were erecting in their own interests.

The guidelines intended to combat racism begin by announcing that race and ethnicity are sociopolitical constructs. This is a contentious claim (even if we could agree on what is meant by sociopolitical construct), and it is one that I happen to think is unsupported by either the data or by sound philosophical argument. Even so, the section goes on to assert that:

This convoluted reasoning will surely only aggravate existing double standards in discussions of race and ethnicitythose who contend that society is teeming with racism can point to disadvantages experienced by racial groups, but those who contend that disparities are caused by behavioral differences are flatly told that race does not exist. Would these standards be consistently applied to a paper that examined racial disparities in police shootings and a paper that examined racial differences in crime rates?

Racism, we are told, is scientifically unfounded and ethically untenable. Editors reserve the right to request modifications to (or correct or otherwise amend post-publication), and in severe cases refuse publication of (or retract post-publication), racist content. But since scientifically unfounded material can be rejected on that basis alone, there is no need to invoke potential harms to vulnerable groups as an additional justification. The authors implication seems to be that racism should be understood (unlike the reverse variety) to apply to some groups and not others, and that what the authors wish to oppose is research that might discredit the efficacy or justness of, say, affirmative action. But since the editorial and its guidelines provide no examples of supposedly racist content, it is difficult to know.

The section on sex, gender, and sexual orientation is similarly vague and tendentious. The authors claim, for example, that, there is a spectrum of gender identities and expression defining how individuals identify themselves and express their gender. Well, maybe. But this is an ideologically provocative claimand certainly one with which many people across the political spectrum will strongly disagree. Brazenly avoiding any pretense of objectivity, the authors then itemize the usual laundry list of putative gender identities, including, but not limited to, transgender, gender-queer, gender-fluid, non-binary, gender-variant, genderless, agender, nongender, bi-gender, trans man, trans woman, trans masculine, trans feminine and cisgender. Gender norms, we are told, are not fixed but evolve across time and space. As such, definitions will require frequent revisiting It is hard to imagine that more than five percent of conservatives would agree to this, but that is evidently of no concern to the authors. The chief purpose of this section seems to be to signal to other progressives, We are on your side, and to send a corresponding signal to conservatives: You are not our people.

The editorial closes by declaring that, Researchers are encouraged to promote equality in their academic research, and that editors reserve the right to retract articles that are sexist, misogynistic, and/or anti-LGBTQ+. Again, no examples of these retraction-worthy crimes are offered, and so familiar objections resurface. Is a paper that contends that men are physically stronger than women misogynistic? Is a paper that examines the correlation between trans-identity and other mental illnesses anti-LGBTQ+?

Science is a human activity, and like all human activities, it is influenced by human values, human biases, and human imperfections. Those will never be eliminated. The banner of science has undoubtedly been waved to justify, excuse, or otherwise rationalize appalling crimes and atrocities, from the racial pseudoscience of the Nazis to the blank slatism (and Lysenkoism) of the communists. But the correct response to these distortions is not to endorse a highly partisan vision of science that promotes a progressive worldview, alienating all those who disagree and further encouraging doubt about the objectivity of scientific endeavor. The correct response is to preserve an adversarial vision of science that promotes debate, disagreement, and free inquiry as the best way to reach the truth.

Continued here:
The Fall of Nature - Quillette