Results 51 to 60 of about 4,265 (160)

Supplemental Dataset for, "Benchmarking Orthogroup Inference Accuracy: Revisiting Orthobench" - updated published version

, 2020
The supplemental dataset for, "Benchmarking Orthogroup Inference Accuracy: Revisiting Orthobench". This is the updated dataset for the article published in Genome Biology and Evolution.
Emms, David, Kelly, Steven
openaire   +2 more sources

Integrative transcriptomic and machine learning approaches reveal candidate genes for silk and venom production in Bibionomorpha (Diptera)

Insect Molecular Biology, EarlyView.
Multi‐species transcriptomics and deep learning identified candidate genes associated with silk and venom production in Bibionomorpha. Venom‐associated genes were enriched in proteases, inhibitors and pore‐forming proteins, whereas silk‐related genes showed chitin‐binding and peritrophin domains. Integrating co‐expression networks, machine learning and
Daniel Kenji Matuo, João Alfredo Teodoro, Danilo T. Amaral   +2 more
wiley   +1 more source

High‐quality genome of elite peanut cultivar ZH05 reveals subgenome asymmetry, pan‐genome diversity, and breeding insights

Journal of Integrative Plant Biology, EarlyView.
A high‐quality reference genome for the elite peanut cultivar Zhonghua No. 5 revealed differing evolutionary paths between the two peanut subgenomes. SubA has higher overall gene expression and more open chromatin, whereas SubB has stronger structural organization, higher DNA methylation, and greater adaptive diversity associated with peanut evolution ...
Taihua Yang, Nian Liu, Li Huang, Jianbin Guo, Xiaomeng Xue, Mingjun Wang, Xiaohan Zhang, Chengtao Quan, Enyou Feng, Jiazhuang Tan, Zhenzhen Zhang, Yu You, Youlin Xia, Dongxin Huai, Yuning Chen, Liyin Yan, Kede Liu, Huifang Jiang, Yong Lei, Boshou Liao   +19 more
wiley   +1 more source

OMGene: mutual improvement of gene models through optimisation of evolutionary conservation

BMC Genomics, 2018
Background The accurate determination of the genomic coordinates for a given gene – its gene model – is of vital importance to the utility of its annotation, and the accuracy of bioinformatic analyses derived from it.
Michael P. Dunne, Steven Kelly
doaj   +1 more source

Identification and functional analysis of class 3 lipases associated with triacylglycerol metabolism in Nannochloropsis oceanica (Eustigmatophyceae)

Journal of Phycology, EarlyView.
Abstract Microalgae accumulate triacylglycerols (TAGs) as storage lipids in response to nutrient limitation, yet the mechanisms governing TAG turnover remain incompletely understood. In the oleaginous microalga Nannochloropsis oceanica, functional studies of TAG degradation have focused on lipases containing patatin domains, whereas the roles of other ...
Masako Iwai, Koichi Hori, Tomokazu Kurita, Kumiko Okazaki, Shinichiro Maeda, Akihide Takami, Takashi Yamamoto, Atsushi Sakamoto, Hiroyuki Ohta, Mie Shimojima   +9 more
wiley   +1 more source

Rational reduction of a sorghum SynCom that preserves growth promotion reveals flavonoid‐mediated plant–microbe interactions

New Phytologist, EarlyView.
Synthetic community complexity reduction designs. Summary Plant growth is influenced by the composition of its associated microbiome. The inherent complexity and functional redundancy of natural plant microbiomes present a formidable barrier to understanding the myriad biological interactions therein.
Dean Pettinga, Citlali Fonseca‐García, Genevieve Krause, Hannah Ploemacher, Travis Wheeler, Chaevien S. Clendinen, Pubudu Handakumbura, Robert Egbert, Devin Coleman‐Derr   +8 more
wiley   +1 more source

A conserved minimal core and modular extensions make the fungal flagellum

Scientific Reports
Flagellated fungi are pivotal for understanding the evolution of eukaryotic motility, yet knowledge of their flagellar proteins remains fragmentary. We assembled a cross-phyla atlas by mapping 394 reference flagellar proteins on 184 fungal proteomes. Out
Aleksander Kossakowski, Drishtee Barua, Anna Muszewska   +2 more
doaj   +1 more source

The host range paradox of Meloidogyne incognita: a physiological and transcriptomic analysis of nine susceptible interactions across six plant orders

New Phytologist, EarlyView.
Phylogenetic distance of host does not explain phenotypic differences of Meloidogyne incognita parasitism at 25 dpi. Summary The plant–parasitic nematode Meloidogyne incognita is the pathogen with the broadest host range among all known biotrophic interactions.
Victor Hugo Moura de Souza, Clement Pellegrin, Vincent C. T. Hanlon, Chongjing Xia, Olaf P. Kranse, Unnati Sonawala, Priya Desikan, Beatrice Senatori, Lucie Bolelli, Etienne G. J. Danchin, Lida Derevnina, Sebastian Eves‐van den Akker   +11 more
wiley   +1 more source

Association of pathogenic determinants of Fusobacterium necrophorum with bacteremia, and Lemierre’s syndrome

Scientific Reports
Fusobacterium necrophorum is a Gram-negative anaerobic bacterium responsible for localized infections of the oropharynx that can evolve into bacteremia and/or septic thrombophlebitis of the jugular vein or peritonsillar vein, called Lemierre’s syndrome ...
Alessia Carrara, Claire Bertelli, Céline Gardiol, Bastian Marquis, Diego O. Andrey, Jacques Schrenzel, Trestan Pillonel, Gilbert Greub   +7 more
doaj   +1 more source

A molecular atlas of plastid and mitochondrial proteins reveals organellar remodeling during plant evolutionary transitions from algae to angiosperms.

PLoS Biology
Algae and plants carry 2 organelles of endosymbiotic origin that have been co-evolving in their host cells for more than a billion years. The biology of plastids and mitochondria can differ significantly across major lineages and organelle changes likely
Parth K Raval, Alexander I MacLeod, Sven B Gould   +2 more
doaj   +1 more source