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Phylogenomics [PDF]

Current Biology, 2021
The reconstruction of evolutionary relationships among species is fundamental for our understanding of biodiversity. Today, evolutionary relationships are closely related with the depiction of the tree of life, and research on the topic is underpinned by methods in molecular phylogenetics that have grown in popularity since the 1960s.
openaire   +3 more sources

Phylogenomics with paralogs [PDF]

Proceedings of the National Academy of Sciences, 2015
Significance We demonstrate that the distribution of paralogs in large gene families contains in itself sufficient phylogenetic signal to infer fully resolved species phylogenies. This source of phylogenetic information is independent of information contained in orthologous sequences and is resilient against horizontal gene transfer.
Hellmuth, Marc, Wieseke, Nicolas, Lechner, Marcus, Lenhof, Hans-Peter, Middendorf, Martin, Stadler, Peter F.   +5 more
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Liolophura species discrimination with geographical distribution patterns and their divergence and expansion history on the northwestern Pacific coast

Scientific Reports, 2021
The chiton Liolophura japonica (Lischke 1873) is distributed in intertidal areas of the northwestern Pacific. Using COI and 16S rRNA, we found three genetic lineages, suggesting separation into three different species.
Eun Hwa Choi, Mi Yeong Yeo, Gyeongmin Kim, Bia Park, Cho Rong Shin, Su Youn Baek, Ui Wook Hwang   +6 more
doaj   +1 more source

Phylogenomics and the flowering plant tree of life.

Journal of Integrative Plant Biology, 2022
The advances accelerated by next-generation sequencing and long-read sequencing technologies continue to provide an impetus for plant phylogenetic study.
Cen Guo, Yang Luo, Lianming Gao, T. Yi, Hong-Tao Li, Jun-Bo Yang, De‐Zhu Li   +6 more
semanticscholar   +1 more source

Dynamic changes in community structure and degradation performance of a bacterial consortium MMBC-1 during the subculturing revival reveal the potential decomposers of lignocellulose

Bioresources and Bioprocessing, 2022
Bacterial consortium is an important source of lignocellulolytic strains, but it is still a challenge to distinguish the direct decomposers of lignocellulose from other bacteria in such a complex community.
Jingrong Zhu, Jiawen Liu, Weilin Li, Yunrui Ru, Di Sun, Cong Liu, Zongyun Li, Weijie Liu   +7 more
doaj   +1 more source

Integrated phylogenomics and fossil data illuminate the evolution of beetles

bioRxiv, 2021
With over 380,000 described species and possibly several million more yet unnamed, beetles represent the most biodiverse animal order. Recent phylogenomic studies have arrived at considerably incongruent topologies and widely varying estimates of ...
Chen-yang Cai, Erik Tihelka, M. Giacomelli, J. Lawrence, A. Ślipiński, Robin Kundrata, Shûhei Yamamoto, M. Thayer, A. Newton, R. Leschen, M. Gimmel, Liang Lü, M. Engel, Diying Huang, D. Pisani, P. Donoghue   +15 more
semanticscholar   +1 more source

An updated tribal classification of Lamiaceae based on plastome phylogenomics

BMC Biology, 2021
Background A robust molecular phylogeny is fundamental for developing a stable classification and providing a solid framework to understand patterns of diversification, historical biogeography, and character evolution.
Fei Zhao, Ya‐Ping Chen, Y. Salmaki, B. Drew, Trevor C. Wilson, Anne-Cathrine Scheen, F. Celep, C. Bräuchler, M. Bendiksby, Qiang Wang, Daozhang Min, Hua Peng, R. Olmstead, Bo Li, Chun‐Lei Xiang   +14 more
semanticscholar   +1 more source

Possible species discrimination of a blotched nerite Nerita albicilla with their distribution pattern and demographic history in the Indo-Pacific

Scientific Reports, 2023
The blotched nerite Nerita albicilla (Linnaeus 1758) is distributed in intertidal areas of the Indo-Pacific. In South Korea, it has been found only in the southernmost region of Jeju Island so far. Owing to its limited distribution, it can be a promising
Seonghyeon Hong, Bia Park, Gyeongmin Kim, Eun Hwa Choi, Ui Wook Hwang   +4 more
doaj   +1 more source

Pandemic-scale phylogenomics reveals the SARS-CoV-2 recombination landscape

Nature, 2022
Accurate and timely detection of recombinant lineages is crucial for interpreting genetic variation, reconstructing epidemic spread, identifying selection and variants of interest, and accurately performing phylogenetic analyses1–4. During the SARS-CoV-2
Yatish Turakhia, Bryan Thornlow, A. Hinrichs, Jakob McBroome, Nicolas M. Ayala, Chengin Ye, Kyle Smith, N. de Maio, D. Haussler, R. Lanfear, Russell B. Corbett-Detig   +10 more
semanticscholar   +1 more source

Recent advances and perspectives in efforts to reduce the production and application cost of microbial flocculants

Bioresources and Bioprocessing, 2021
Microbial flocculants are macromolecular substances produced by microorganisms. Due to its non-toxic, harmless, and biodegradable advantages, microbial flocculants have been widely used in various industrial fields, such as wastewater treatment ...
Cong Liu, Di Sun, Jiawen Liu, Jingrong Zhu, Weijie Liu   +4 more
doaj   +1 more source