Article
Biochemistry & Molecular Biology
Philipp Kaufmann, R. Axel W. Wiberg, Konstantinos Papachristos, Douglas G. Scofield, Christian Tellgren-Roth, Elina Immonen
Summary: The Y chromosome in seed beetles has been found to affect male body size and sexual size dimorphism. Researchers discovered an additional copy of the gene target of rapamycin (TOR) on the Y chromosome, which may provide a male-specific opportunity to alter body size. Despite suppressed recombination, the Y chromosome has adaptive potential as a male-limited supergene.
MOLECULAR BIOLOGY AND EVOLUTION
(2023)
Article
Biochemistry & Molecular Biology
Pooja Singh, Michael Taborsky, Catherine L. Peichel, Christian Sturmbauer
Summary: Sexually antagonistic selection has a significant role in the evolution of sex chromosomes. In the shell-brooding cichlid fish, a sexually antagonistic trait, body size, is linked to a 2.4-Mb sex-linked region with candidate genes for body size and sex determination. This study provides evidence supporting the hypothesis that sexually antagonistic traits are linked to young sex chromosomes.
Article
Psychiatry
Sean M. Mooney-Leber, Dana Zeid, Prescilla Garcia-Trevizo, Laurel R. Seemiller, Molly A. Bogue, Stephen C. Grubb, Gary Peltz, Thomas J. Gould
Summary: The study found a significant relationship between acetylcholine activity in the dorsal hippocampus and learning capabilities, with levels of acetylcholinesterase varying among inbred mouse strains. There were differences in contextual and cued fear conditioning across different strains, and the dorsal hippocampus was found to be functionally distinct from the ventral hippocampus in relation to fear conditioning outcomes.
FRONTIERS IN PSYCHIATRY
(2021)
Article
Medicine, General & Internal
Saumya Srivastav, Mohammed Hasnat Ali, Sayan Basu, Swati Singh
Summary: The distribution of Meibomian gland morphologies varies with age in healthy individuals, and only moderate to severely short glands show an increase in abnormal morphologies.
FRONTIERS IN MEDICINE
(2023)
Article
Ecology
Philipp Kaufmann, Matthew E. Wolak, Arild Husby, Elina Immonen
Summary: The evolution of sexual body size dimorphism in seed beetles primarily depends on female additive genetic variance linked to autosomes, with a strong intersexual genetic correlation with males. Sexual dimorphism evolved in response to male-limited and sexually antagonistic selection, but not under female-limited selection. Y-linked genes alone could change dimorphism significantly, despite the small size and heterochromatin nature of the Y chromosome in C. maculatus.
NATURE ECOLOGY & EVOLUTION
(2021)
Article
Immunology
Elena Putscher, Michael Hecker, Brit Fitzner, Nina Boxberger, Margit Schwartz, Dirk Koczan, Peter Lorenz, Uwe Klaus Zettl
Summary: This study found that genetic variants from MS risk loci affect pre-mRNA splicing. These findings substantiate the role of alternative splicing events in the genetics of MS. Further research on how disease-causing genetic variants modify the interactions between splicing regulatory sequence elements and RNA-binding proteins can help deepen our understanding of the genetic susceptibility to MS.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Genetics & Heredity
Chunyu Liu, Chaofeng Tu, Lingbo Wang, Huan Wu, Brendan J. Houston, Francesco K. Mastrorosa, Wen Zhang, Ying Shen, Jiaxiong Wang, Shixiong Tian, Lanlan Meng, Jiangshan Cong, Shenmin Yang, Yiwen Jiang, Shuyan Tang, Yuyan Zeng, Mingrong Lv, Ge Lin, Jinsong Li, Hexige Saiyin, Xiaojin He, Li Jin, Aminata Toure, Pierre F. Ray, Joris A. Veltman, Qinghua Shi, Moira K. O'Bryan, Yunxia Cao, Yue-Qiu Tan, Feng Zhang
Summary: The study identified variants in CFAP47 gene leading to X-linked MMAF and asthenoteratozoospermia. Experimental observations in patients and mice demonstrated that fertility could be restored through ICSI.
AMERICAN JOURNAL OF HUMAN GENETICS
(2021)
Article
Physiology
Jasmine L. L. Loveland, Lina M. M. Giraldo-Deck, Aubrey M. M. Kelly
Summary: This article discusses recent findings on the ruff and presents new insights into how a genetic inversion affects behavior polymorphisms. By studying a mutation in the HSD17B2 gene responsible for testosterone conversion, it is found that the mutation leads to an increase in hormone conversion and contributes to behavioral differences among mating tactics. The study also identifies morph differences in neural gene expression during embryonic development and circulating hormones during sexual immaturity. Therefore, it is proposed that the shaping of behavioral differences likely begins early in ontogeny and may affect behaviorally relevant neurons.
FRONTIERS IN PHYSIOLOGY
(2022)
Article
Reproductive Biology
Hayden Holmlund, Yasuhiro Yamauchi, Gerald Durango, Wataru Fujii, Monika A. Ward
Summary: We generated Prssly and Teyorf1 knockout mice using CRISPR/Cas9 technology, and found that these genes are dispensable for male fertility as the knockout mice displayed normal spermatogenic features.
BIOLOGY OF REPRODUCTION
(2022)
Article
Fisheries
Thitipong Panthum, Pish Wattanadilokchatkun, Kitipong Jaisamut, Worapong Singchat, Syed Farhan Ahmad, Narongrit Muangmai, Prateep Duengkae, Agostinho Antunes, Kornsorn Srikulnath
Summary: In this study, the male-linked region of the jade perch was identified on chromosome 19, and a remnant of the amh gene was found in this region, which is considered a candidate gene for sex determination in teleosts.
Article
Neurosciences
Guersel Caliskan, Yunus E. Demiray, Oliver Stork
Summary: A major challenge in neuroscience is to identify neurobiological correlates of cognitive and neuropsychiatric traits. We investigated hippocampal network oscillations in three widely used inbred mouse strains and found higher gamma oscillation power and incidence of hippocampal sharp wave-ripple transients in strains showing aberrant emotional/cognitive behavior. We also observed differences in interneuron types and network activity, highlighting profound physiological differences among commonly used inbred mouse strains.
EUROPEAN JOURNAL OF NEUROSCIENCE
(2023)
Article
Veterinary Sciences
Wataru Hirata, Taiki Tomoda, Shunsuke Yuri, Ayako Isotani
Summary: By introducing a red fluorescent protein (RFP) transgene on the Y-chromosome, a mouse model was successfully established to rapidly and accurately identify male embryos. However, the Y-RFP mouse exhibited a lethal phenotype after birth, but no lethal phenotypes were observed when including the mitochondrial locating signal tdTomato (mtRFP) in the transgene construct. When crossed with wild-type females, about half of the fertilized eggs from Y-mtRFP male mice showed an RFP signal at the preimplantation stage, allowing for the recognition of XY eggs as RFP-positive embryos. Additionally, 100% sexing was achieved at the preimplantation stage using X-linked GFP/Y-linked RFP male mice. The established Y-mtRFP mouse models can be utilized for research related to sex chromosomes.
EXPERIMENTAL ANIMALS
(2022)
Article
Genetics & Heredity
Masatoshi Nakamoto, Tsubasa Uchino, Eriko Koshimizu, Yudai Kuchiishi, Ryota Sekiguchi, Liu Wang, Ryusuke Sudo, Masato Endo, Yann Guiguen, Manfred Schartl, John H. Postlethwait, Takashi Sakamoto
Summary: The genomic study of ayu reveals its XX/XY sex determination system and the critical role of the male-specific amh-amhr2 pathway in testicular differentiation.
Article
Multidisciplinary Sciences
P. H. Vogt, M-A Rauschendorf, J. Zimmer, C. Drummer, R. Behr
Summary: Translational control plays a crucial role in gene expression regulation in male germ cells. The DDX3Y gene on the human Y chromosome codes for an important RNA helicase involved in translational control during the G1-S phase of the cell cycle. In primates, alternative polyadenylation (APA) sites have evolved in the 3' UTRs of DDX3Y transcripts, with different species showing species-specific usage. This shift in APA sites corresponds to increased protein expression of DDX3Y in testis tissue of macaques. The predominant usage of the most proximal APA site (PAS1) in chimpanzees and humans is associated with translation of these DDX3Y transcripts specifically in premeiotic male germ cells.
SCIENTIFIC REPORTS
(2022)
Article
Cell Biology
Indrajit Nanda, Susanne Schories, Ivan Simeonov, Mateus Contar Adolfi, Kang Du, Claus Steinlein, Manfred Alsheimer, Thomas Haaf, Manfred Schartl
Summary: The conspicuous color sexual dimorphism makes guppies ideal study objects for sex-linked traits and sex chromosome evolution. The Y-chromosome in Micropoecilia. picta has been found to be highly degenerated compared to the X-chromosome, with a low SNP density and high heterochromatin content. This is in contrast to other species in the Poecilia group, indicating that the evolution of sex chromosomes is not parallel.
Review
Genetics & Heredity
Roberta Davidson, Lars Fehren-Schmitz, Bastien Llamas
Summary: The rulers of the Inka empire conquered approximately 2 million km(2) of the South American Andes in less than 100 years from 1438-1533 CE. They conducted a systematic resettlement of the Indigenous peoples in the Andes that had been rapidly colonised. Despite incomplete and conflicting details, research from multiple disciplines has provided valuable insights into the empirical reality of the Inka resettlement policy and highlighted the benefits and limitations of each discipline in investigating it.
Review
Biochemical Research Methods
Adrien Oliva, Raymond Tobler, Alan Cooper, Bastien Llamas, Yassine Souilmi
Summary: This study evaluated the performance of 30 mapping strategies implemented across four different read mapping software using simulated aDNA reads from three different human populations. The results show that specific parameterizations of NovoAlign, BWA-aln, and BWA-mem achieve high mapping precision with low levels of reference bias, especially after filtering out reads with low mapping qualities. The use of an IUPAC reference genome is necessary for achieving unbiased NovoAlign results in aDNA projects with reference population data.
BRIEFINGS IN BIOINFORMATICS
(2021)
Article
Multidisciplinary Sciences
Corey J. A. Bradshaw, Kasih Norman, Sean Ulm, Alan N. Williams, Chris Clarkson, Joel Chadoeuf, Sam C. Lin, Zenobia Jacobs, Richard G. Roberts, Michael Bird, Laura S. Weyrich, Simon G. Haberle, Sue O'Connor, Bastien Llamas, Tim J. Cohen, Tobias Friedrich, Peter Veth, Matthew Leavesley, Frederik Saltre
Summary: Advanced ecological modelling reveals that Sahul (Australia and New Guinea) was most likely first populated by anatomically modern humans entering via the northwest Sahul Shelf around 50,000 to 75,000 years ago, before rapidly settling the entire continent. The study also suggests that these methods and approaches can inform other global migration debates effectively.
NATURE COMMUNICATIONS
(2021)
Article
Multidisciplinary Sciences
Xavier Roca-Rada, Gustavo Politis, Pablo G. Messineo, Nahuel Scheifler, Clara Scabuzzo, Mariela Gonzalez, Kelly M. Harkins, David Reich, Yassine Souilmi, Joao C. Teixeira, Bastien Llamas, Lars Fehren-Schmitz
Summary: Study of mitochondrial genomes from human skeletal remains in the Argentinian Pampas revealed distinct genetic makeup compared to other South Cone of South America (SCSA) populations, with earliest settlers estimated to have arrived in a single and rapid dispersal around 15,600 years ago. Present-day genetic differences between the Pampas and the rest of SCSA are attributed to founder effects, genetic drift, and a partial population replacement around 9,000 years ago.
Article
Genetics & Heredity
Gludhug A. Purnomo, Kieren J. Mitchell, Sue O'Connor, Shimona Kealy, Leonard Taufik, Sophie Schiller, Adam Rohrlach, Alan Cooper, Bastien Llamas, Herawati Sudoyo, Joao C. Teixeira, Raymond Tobler
Summary: The Wallacean islands have a deep history of human presence, but prior population history research has been hindered by patchy archaeological and genetic records. Recent studies show two periods of extensive demographic change in Wallacea, occurring around 15,000 years ago during the Last Glacial Maximum and 3,000 years ago post-Austronesian contact.
Article
Health Care Sciences & Services
Mauricio Salvo, Evelin Gonzalez-Feliu, Jessica Toro, Ivan Gallegos, Ignacio Maureira, Nicolas Miranda-Gonzalez, Olga Barajas, Eva Bustamante, Monica Ahumada, Alicia Colombo, Ricardo Armisen, Camilo Villaman, Carolina Ibanez, Maria Loreto Bravo, Veronica Sanhueza, M. Loreto Spencer, Gonzalo de Toro, Erik Morales, Carolina Bizama, Patricia Garcia, Ana Maria Carrasco, Lorena Gutierrez, Justo Lorenzo Bermejo, Ricardo A. Verdugo, Katherine Marcelain
Summary: The article discusses the barriers to implementing precision oncology in Latin American countries, and presents a method to overcome these barriers through the validation of a 25-gene panel in clinical use.
JOURNAL OF PERSONALIZED MEDICINE
(2021)
Article
Multidisciplinary Sciences
Arthur Kocher, Luka Papac, Rodrigo Barquera, Felix M. Key, Maria A. Spyrou, Ron Hubler, Adam B. Rohrlach, Franziska Aron, Raphaela Stahl, Antje Wissgott, Florian van Bommel, Maria Pfefferkorn, Alissa Mittnik, Vanessa Villalba-Mouco, Gunnar U. Neumann, Maite Rivollat, Marieke S. van de Loosdrecht, Kerttu Majander, Rezeda Tukhbatova, Lyazzat Musralina, Ayshin Ghalichi, Sandra Penske, Susanna Sabin, Megan Michel, Joscha Gretzinger, Elizabeth A. Nelson, Tiago Ferraz, Kathrin Nagele, Cody Parker, Marcel Keller, Evelyn K. Guevara, Michal Feldman, Stefanie Eisenmann, Eirini Skourtanioti, Karen Giffin, Guido Alberto Gnecchi-Ruscone, Susanne Friederich, Vittoria Schimmenti, Valery Khartanovich, Marina K. Karapetian, Mikhail S. Chaplygin, Vladimir V. Kufterin, Aleksandr A. Khokhlov, Andrey A. Chizhevsky, Dmitry A. Stashenkov, Anna F. Kochkina, Cristina Tejedor-Rodriguez, Inigo Garcia-Martinez de Lagran, Hector Arcusa-Magallon, Rafael Garrido-Pena, Jose Ignacio Royo-Guillen, Jan Novacek, Stephane Rottier, Sacha Kacki, Sylvie Saintot, Elena Kaverzneva, Andrej B. Belinskiy, Petr Veleminsky, Petr Limbursky, Michal Kostka, Louise Loe, Elizabeth Popescu, Rachel Clarke, Alice Lyons, Richard Mortimer, Antti Sajantila, Yadira Chinique de Armas, Silvia Teresita Hernandez Godoy, Diana Hernandez-Zaragoza, Jessica Pearson, Didier Binder, Philippe Lefranc, Anatoly R. Kantorovich, Vladimir E. Maslov, Luca Lai, Magdalena Zoledziewska, Jessica F. Beckett, Michaela Langova, Tara Ingman, Gabriel Garcia Atienzar, Maria Paz de Miguel Ibanez, Alejandro Romero, Alessandra Sperduti, Sophie Beckett, Susannah J. Salter, Emma D. Zilivinskaya, Dmitry V. Vasil, Kristin von Heyking, Richard L. Burger, Lucy C. Salazar, Luc Amkreutz, Masnav Navruzbekov, Eva Rosenstock, Carmen Alonso-Fernandez, Vladimir Slavchev, Alexey A. Kalmykov, Biaslan Ch Atabiev, Elena Batieva, Micaela Alvarez Calmet, Bastien Llamas, Michael Schultz, Raiko Krauss, Javier Jimenez-Echevarria, Michael Francken, Svetlana Shnaider, Peter de Knijff, Eveline Altena, Katrien Van de Vijver, Lars Fehren-Schmitz, Tiffiny A. Tung, Sandra Losch, Maria Dobrovolskaya, Nikolaj Makarov, Chris Read, Melanie Van Twest, Claudia Sagona, Peter C. Ramsl, Murat Akar, K. Aslihan Yener, Eduardo Carmona Ballestero, Francesco Cucca, Vittorio Mazzarello, Pilar Utrilla, Kurt Rademaker, Eva Fernandez-Dominguez, Douglas Baird, Patrick Semal, Lourdes Marquez-Morfin, Mirjana Roksandic, Hubert Steiner, Domingo Carlos Salazar-Garcia, Natalia Shishlina, Yilmaz Selim Erdal, Fredrik Hallgren, Yavor Boyadzhiev, Kamen Boyadzhiev, Mario Kuessner, Duncan Sayer, Paivi Onkamo, Robin Skeates, Manuel Rojo-Guerra, Alexandra Buzhilova, Elmira Khussainova, Leyla B. Djansugurova, Arman Z. Beisenov, Zainolla Samashev, Ken Massy, Marcello Mannino, Vyacheslav Moiseyev, Kristiina Mannermaa, Oleg Balanovsky, Marie-France Deguilloux, Sabine Reinhold, Svend Hansen, Egor P. Kitov, Miroslav Dobes, Michal Ernee, Harald Meller, Kurt W. Alt, Kay Prufer, Christina Warinner, Stephan Schiffels, Philipp W. Stockhammer, Kirsten Bos, Cosimo Posth, Alexander Herbig, Wolfgang Haak, Johannes Krause, Denise Kuehnert
Summary: Hepatitis B virus (HBV) has been infecting humans for millennia, originating between similar to 20,000 and 12,000 years ago. It was present in European and South American hunter-gatherers during the early Holocene, and later replaced by a lineage disseminated by early farmers after the European Neolithic transition.
Article
Nutrition & Dietetics
Maria Lourdes Lopez-Portillo, Andrea Huidobro, Eduardo Tobar-Calfucoy, Cristian Yanez, Rocio Retamales-Ortega, Macarena Garrido-Tapia, Johanna Acevedo, Fabio Paredes, Vicente Cid-Ossandon, Catterina Ferreccio, Ricardo A. Verdugo
Summary: Chile is one of the largest consumers of sugar-sweetened beverages (SSB) worldwide. This study aims to evaluate the interaction effect between SSB intake and T2D susceptibility on fasting glucose in the Chilean population. The results show that the association between SSB intake and fasting glucose is modified by T2D genetic susceptibility.
Letter
Ecology
Adrien Oliva, Raymond Tobler, Bastien Llamas, Yassine Souilmi
ECOLOGY AND EVOLUTION
(2021)
Review
Genetics & Heredity
Evelyn Jane Collen, Angad Singh Johar, Joao C. Teixeira, Bastien Llamas
Summary: This study examines the impacts of imported infectious diseases on the immune system of Indigenous peoples in America during early European contact. The findings suggest that post-contact Indigenous immune adaptation is complex and influenced by various factors, including selection exerted by introduced pathogens.
FRONTIERS IN GENETICS
(2022)
Article
Microbiology
Gina L. Guzzo, Murthy N. Mittinty, Bastien Llamas, Jane M. Andrews, Laura S. Weyrich
Summary: It is known that the bacterial gut microbiome is altered in inflammatory bowel disease (IBD), but the role of eukaryotic microorganisms in IBD is less understood. This study characterized the eukaryotic microbial communities in IBD patients and found higher prevalence of fungi and lower prevalence of protozoa compared to healthy individuals. Disease state, age, and BMI were associated with the prevalence and abundance of these eukaryotes. The study also found that the eukaryotic gut microbiome varied over time in IBD patients who received fecal transplants. The findings suggest that future studies should consider including eukaryotic microbes when characterizing the gut microbiome in IBD.
Review
Genetics & Heredity
Leonard Taufik, Joao C. Teixeira, Bastien Llamas, Herawati Sudoyo, Raymond Tobler, Gludhug A. Purnomo
Summary: Genomic sequence data provides novel insights into human ancestry and migratory history. However, many Indigenous populations have been excluded from genomic surveys, hindering a comprehensive understanding of these fundamental questions. This review summarizes key findings from population genetic and phylogeographic studies in Wallacea and Sahul, highlighting their importance in addressing human evolutionary questions.
Article
Biochemistry & Molecular Biology
Dawn A. Lewis, Rebecca Simpson, Azure Hermes, Alex Brown, Bastien Llamas
Summary: The rise of sedimentary ancient DNA studies has provided new possibilities for studying past environments by using sediments to identify organisms. However, managing this substrate in Indigenous Australian contexts requires special considerations due to the cultural significance of the genetic information obtained. Benefit sharing, particularly the integration of Traditional Knowledges, is crucial in ensuring research outcomes are shared equitably with Indigenous communities and that the research is conducted ethically.
MOLECULAR ECOLOGY RESOURCES
(2023)
Article
Biotechnology & Applied Microbiology
Tian Zhang, Gregory R. Keele, Isabela Gerdes Gyuricza, Matthew Vincent, Catherine Brunton, Timothy A. Bell, Pablo Hock, Ginger D. Shaw, Steven C. Munger, Fernando Pardo-Manuel de Villena, Martin T. Ferris, Joao A. Paulo, Steven P. Gygi, Gary A. Churchill
Summary: This study quantified phosphopeptides, proteins, and transcripts in mouse tissue samples and identified key regulators of protein phosphorylation, including kinases, phosphatases, cytokines, and genes. The integrative multi-omics analysis provided a powerful tool for identifying regulators of protein phosphorylation.
Article
Cell Biology
Neerjah Skantharajah, Shakuntala Baichoo, Tiffany F. Boughtwood, Esmeralda Casas-Silva, Subhashini Chandrasekharan, Sanjay M. Dave, Khalid A. Fakhro, Aida B. Falcon de Vargas, Sylvia S. Gayle, Vivek K. Gupta, Rachele Hendricks-Sturrup, Ashley E. Hobb, Stephanie Li, Bastien Llamas, Catalina Lopez-Correa, Mavis Machirori, Jorge Melendez-Zajgla, Mareike A. Millner, Angela J. H. Page, Laura D. Pagilone, Maili C. Raven-Adams, Lindsa Smith, Ericka M. Thomas, Judi Kumthini, Manuel Corpas
Summary: The lack of diversity hinders equitable leadership and access to precision medicine in the field of genomics for health. To address this issue, the Global Alliance for Genomics and Health has implemented measures to promote diversity and inclusion in its standards and membership.