Farhat, Sarah Le, Phuong Kayal, Ehsan Noel, Benjamin Bigeard, Estelle Corre, Erwan Maumus, Florian Florent, Isabelle Alberti, Adriana Aury, Jean-Marc
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Published in
BMC Biology
BackgroundDinoflagellates are aquatic protists particularly widespread in the oceans worldwide. Some are responsible for toxic blooms while others live in symbiotic relationships, either as mutualistic symbionts in corals or as parasites infecting other protists and animals. Dinoflagellates harbor atypically large genomes (~ 3 to 250 Gb), with gene...
Bendová, Barbora Piálek, Jaroslav Ďureje, Ľudovít Schmiedová, Lucie Čížková, Dagmar Martin, Jean-Francois Kreisinger, Jakub
Published in
BMC Microbiology
BackgroundThe vertebrate gastrointestinal tract is colonised by microbiota that have a major effect on the host’s health, physiology and phenotype. Once introduced into captivity, however, the gut microbial composition of free-living individuals can change dramatically. At present, little is known about gut microbial changes associated with adaptat...
Franzo, Giovanni Tucciarone, Claudia Maria Legnardi, Matteo Cecchinato, Mattia
Published in
BMC Genomics
BackgroundInfectious bronchitis virus (IBV) is one of the most relevant viruses affecting the poultry industry, and several studies have investigated the factors involved in its biological cycle and evolution. However, very few of those studies focused on the effect of genome composition and the codon bias of different IBV proteins, despite the rem...
Kumawat, Bhaskar Bhat, Ramray
Published in
BMC Ecology and Evolution
BackgroundAsexually reproducing populations of single cells evolve through mutation, natural selection, and genetic drift. Environmental conditions in which the evolution takes place define the emergent fitness landscapes. In this work, we used Avida—a digital evolution framework—to uncover a hitherto unexplored interaction between mutation rates, ...
Wang, Shouhong Shi, Yun-Bo
Published in
Cell & Bioscience
Tissue regeneration is of fast growing importance in the development of biomedicine, particularly organ replacement therapies. Unfortunately, many human organs cannot regenerate. Anuran Xenopus laevis has been used as a model to study regeneration as many tadpole organs can regenerate. In particular, the tail, which consists of many axial and parax...
Yahara, Koji Ma, Kevin C. Mortimer, Tatum D. Shimuta, Ken Nakayama, Shu-ichi Hirabayashi, Aki Suzuki, Masato Jinnai, Michio Ohya, Hitomi Kuroki, Toshiro
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Published in
Genome Medicine
BackgroundAntimicrobial resistance in Neisseria gonorrhoeae is a global health concern. Strains from two internationally circulating sequence types, ST-7363 and ST-1901, have acquired resistance to third-generation cephalosporins, mainly due to mosaic penA alleles. These two STs were first detected in Japan; however, the timeline, mechanism, and pr...
Kaur, Navneet Iyer, Ashwin Sunagar, Kartik
Published in
Indian Pediatrics
Snakebite is a neglected tropical disease that inflicts severe socioeconomic burden on developing countries by primarily affecting their rural agrarian populations. India is a major snakebite hotspot in the world, as it accounts for more than 58,000 annual snakebite mortalities and over three times that number of morbidities. The only available tre...
Rödelsperger, Christian
Published in
BMC Genomics
BackgroundThe nematode Pristionchus pacificus is an established model organism for comparative studies with Caenorhabditis elegans. Over the past years, it developed into an independent animal model organism for elucidating the genetic basis of phenotypic plasticity. Community-based curations were employed recently to improve the quality of gene an...
Ma, Xinyuan Baeza, J Antonio Richards, Vincent P Agudelo, Paula
Published in
Phytopathology
The Columbia lance nematode Hoplolaimus columbus has been reported frequently from North America due to its negative impact on agricultural production. In this study, for the first time, we sequenced the whole genome of a female specimen by using whole-genome-amplification and Illumina MiSeq. Data were de novo assembled to form scaffolds of 205.75...
Vassetzky, Nikita S. Kosushkin, Sergei A. Korchagin, Vitaly I. Ryskov, Alexey P.
Published in
Mobile DNA
BackgroundSINEs comprise a significant part of animal genomes and are used to study the evolution of diverse taxa. Despite significant advances in SINE studies in vertebrates and higher eukaryotes in general, their own evolution is poorly understood.ResultsWe have discovered and described in detail a new Squam3 SINE specific for scaled reptiles (Sq...
