Tracking the Origins of <i>Pseudomonas aeruginosa</i> Phylogroups by Diversity and Evolutionary Analysis of Important Pathogenic Marker Genes by Sara E. Quiroz-Morales, Selene García-Reyes, Gabriel Yaxal Ponce-Soto, Luis Servín-González, Gloria Soberón-Chávez

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Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters by Marie Louis, Petra Korlević, Milaja Nykänen, Frederick Archer, Simon Berrow, Andrew Brownlow, Eline D. Lorenzen, Joanne O’Brien, Klaas Post, Fernando Racimo, Emer Rogan, Patricia E. Rosel, Mikkel-Holger S. Sinding, Henry van der Es, Nathan Wales, Michael C. Fontaine, Oscar E. Gaggiotti, Andrew D. Foote

“…Here, we harness the temporal resolution of paleogenomics to address these long-standing questions, by comparing genomes originating from the mid-Holocene (8610-5626 years before present, BP) to contemporary pairs of coastal-pelagic ecotypes of bottlenose dolphin. …”
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Intergeneric hybridization of two stickleback species leads to introgression of membrane-associated genes and invasive TE expansion by Artem Nedoluzhko, Artem Nedoluzhko, Fedor Sharko, Fedor Sharko, Fedor Sharko, Svetlana Tsygankova, Eugenia Boulygina, Natalia Slobodova, Anton Teslyuk, Jorge Galindo-Villegas, Sergey Rastorguev, Sergey Rastorguev

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Patterns of spatial and temporal dynamics of mixed Mytilus edulis and M. trossulus populations in a small subarctic inlet (Tyuva Inlet, Barents Sea) by Julia Marchenko, Vadim Khaitov, Vadim Khaitov, Marina Katolikova, Marat Sabirov, Sergey Malavenda, Michael Gantsevich, Larisa Basova, Evgeny Genelt-Yanovsky, Petr Strelkov, Petr Strelkov

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On the Issue of the Sarmatian Population Genetic Composotion in the Lower Volga Region (Paleogenetic Data) by Aleksandr S. Pilipenko, Stepan V. Cherdantsev, Rostislav O. Trapezov, Matvey A. Tomilin, Mariya A. Balabanova, Maria S. Pristyazhnyuk, Anton A. Zhuravlev

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The CALeDNA program: Citizen scientists and researchers inventory California's biodiversity by Rachel S. Meyer, Miroslava Munguia Ramos, Meixi Lin, Teia M. Schweizer, Zachary Gold, Dannise Ruiz Ramos, Sabrina Shirazi, Gaurav Kandlikar, Wai-Yin Kwan, Emily E. Curd, Amanda Freise, Jordan Moberg Parker, Jason P. Sexton, Regina Wetzer, N. Dean Pentcheff, Adam R. Wall, Lenore Pipes, Ana Garcia-Vedrenne, Maura Palacios Mejia, Tiara Moore, Chloe Orland, Kimberly M. Ballare, Anna Worth, Eric Beraut, Emma L. Aronson, Rasmus Nielsen, Harris A. Lewin, Paul H. Barber, Jeff Wall, Nathan Kraft, Beth Shapiro, Robert K. Wayne

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Plasma proteome responses in zebrafish following λ-carrageenan-Induced inflammation are mediated by PMN leukocytes and correlate highly with their human counterparts by Ives Charlie-Silva, Natália M. Feitosa, Leticia G. Pontes, Bianca H. Fernandes, Rafael H. Nóbrega, Juliana M. M. Gomes, Mariana N. L. Prata, Fausto K. Ferraris, Daniela C. Melo, Gabriel Conde, Letícia F. Rodrigues, Mayumi F. Aracati, José D. Corrêa-Junior, Wilson G. Manrique, Joshua Superio, Aguinaldo S. Garcez, Katia Conceição, Tania M. Yoshimura, Silvia C. Núñez, Silvia C. Núñez, Silas F. Eto, Dayanne C. Fernandes, Anderson Z. Freitas, Martha S. Ribeiro, Artem Nedoluzhko, Mônica Lopes-Ferreira, Ricardo C. Borra, Leonardo J. G. Barcellos, Leonardo J. G. Barcellos, Andrea C. Perez, Guilheme Malafaia, Thiago M. Cunha, Thiago M. Cunha, Marco A. A. Belo, Marco A. A. Belo, Marco A. A. Belo, Jorge Galindo-Villegas

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Geographic origin, ancestry, and death circumstances at the Cornaux/Les Sauges Iron Age bridge, Switzerland by Zita Laffranchi, Stefania Zingale, Lara Indra, Valentina Coia, Domingo C. Salazar García, Alice Paladin, Marc-Antoine Kaeser, Géraldine Delley, Sönke Szidat, Sandra Lösch, Albert Zink, Marco Milella

“…We evaluate the most plausible scenario for Cornaux based on osteological, taphonomic, isotopic, and paleogenomic analysis of the recovered individuals. The latter amount to at least 20 individuals, mostly adult males. …”
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The origin of the Carpathian Avar elites revealed by Rosa Fregel

“…Recently reported in Cell, Gnecchi-Ruscone et al.1 obtained paleogenomic evidence from Avar sites in Hungary, placing the Avar elites’ origin in Mongolia and confirming their own historical claims.…”
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Genomic fossils reveal adaptation of non-autonomous pararetroviruses driven by concerted evolution of noncoding regulatory sequences. by Sunlu Chen, Huizhen Zheng, Yuji Kishima

“…As viral genomic fossils, these sequences can thus serve as valuable paleogenomic data to study the long-term evolutionary dynamics of virus-virus interactions, but they have rarely been applied for this purpose. …”
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Sourcing elephant ivory from a sixteenth-century Portuguese shipwreck by de Flamingh, A, Coutu, A, Sealy, J, Chirikure, S, Bastos, ADS, Libanda-Mubusisi, NM, Malhi, RS, Roca, AL

“…Our integration of paleogenomic, archeological, and historical methods to analyze the Bom Jesus ivory provides a framework for examining vast collections of archaeological ivories around the world, in shipwrecks and other contexts. …”

Genetic aspects of lactase deficiency in indigenous populations of Siberia by B. A. Malyarchuk

“…The rs4988285 and rs2070069 loci are located in the enhancer region that regulates the activity of the LCT gene. Analysis of paleogenomic sequences showed that the genomes of Denisovans and Neanderthals are characterized by the above combination of alleles of the MCM6 gene. …”
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Hepatitis B Virus Genotype D: An Overview of Molecular Epidemiology, Evolutionary History, and Clinical Characteristics by Thaís B. Sant’Anna, Natalia M. Araujo

“…We have additionally explored recent paleogenomic findings, which facilitated the detection of HBV/D genomes dating back to the late Iron Age and provided new perspectives on the origins of modern HBV/D strains. …”
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Domestication of farmed fish via the attenuation of stress responses mediated by the hypothalamus–pituitary–inter-renal endocrine axis by Yao Lu, Chuang Shi, Chuang Shi, Xia Jin, Jiangyan He, Zhan Yin, Zhan Yin, Zhan Yin, Zhan Yin

“…Over recent decades, growing evidence implicating the attenuation of the HPA/I axis during the domestication of animals have been identified through comprehensive genomic analyses of the paleogenomic datasets of wild progenitors and their domestic congeners. …”
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Historical and Modern Classifications of the Plague Agent by G. A. Eroshenko, L. M. Kukleva, V. V. Kutyrev

“…The review presents the data on domestic and foreign phenotypic classifications of Yersinia pestis strains developed in the XX century; genetic classifications of the XXI century; as well as on the genealogy of ancient strains of the plague microbe, reconstructed using paleogenomic technologies. Since the discovery of the plague agent in 1894, many classifications were created that corresponded to the level of development of microbiology at that time. …”
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Human dispersal into East Eurasia: ancient genome insights and the need for research on physiological adaptations by Steven Abood, Hiroki Oota

“…These findings largely bolstered the “Out of Africa” model, although they also revealed a small degree of introgression of the Neanderthal and Denisovan genomes into those of non-African Homo sapiens. We also review paleogenomic studies for which migration route, north or south, early migrants to East Eurasia most likely traversed. …”
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A likely paleo-autotetraploidization event shaped the high conservation of Nyssaceae genome by Yishan Feng, Zhenyi Wang, Qimeng Xiao, Jia Teng, Jianyu Wang, Zijian Yu, Jiaqi Wang, Qiang Xu, Yan Zhang, Shaoqi Shen, Shoutong Bao, Yu Li, Zimo Yan, Yue Ding, Zihan Liu, Yuxian Li, Tianyu Lei, Min Yuan, Xiu-Qing Li, Jinpeng Wang

“…Combing both its high retention of paleochromosomes and its low mutation rate, D. involucrata provides the best case in conservation of the core eudicot paleogenome.…”
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Extended longevity of DNA preservation in Levantine Paleolithic sediments, Sefunim Cave, Israel by Viviane Slon, Jamie L. Clark, David E. Friesem, Meir Orbach, Naomi Porat, Matthias Meyer, Andrew W. Kandel, Ron Shimelmitz

“…Abstract Paleogenomic research can elucidate the evolutionary history of human and faunal populations. …”
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5000 years of dietary variations of prehistoric farmers in the Great Hungarian Plain. by Beatriz Gamarra, Rachel Howcroft, Ashley McCall, János Dani, Zsigmond Hajdú, Emese Gyöngyvér Nagy, László D Szabó, László Domboróczki, Ildikó Pap, Pál Raczky, Antónia Marcsik, Zsuzsanna K Zoffmann, Tamás Hajdu, Robin N M Feeney, Ron Pinhasi

“…Although there has been considerable research into the dietary changes associated with the initial spread of farming, less attention has been given to how dietary choices continued to develop during subsequent millennia. A paleogenomic time transect for 5 millennia of human occupation in the Great Hungarian Plain spanning from the advent of the Neolithic to the Iron Age, showed major genomic turnovers. …”
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Biomolecular analysis of the Epigravettian human remains from Riparo Tagliente in northern Italy by Orhan Efe Yavuz, Gregorio Oxilia, Sara Silvestrini, Laura Tassoni, Ella Reiter, Dorothée G. Drucker, Sahra Talamo, Federica Fontana, Stefano Benazzi, Cosimo Posth

“…However, a comparable biomolecular characterization of the Tagliente 1 burial remains unavailable, preventing us from defining its biological relationships with Tagliente 2. Here, we apply paleogenomic, isotopic, and radiocarbon dating analyses on a femur fragment of Tagliente 1 and compare the reconstructed data with previously reported results from Tagliente 2. …”
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