Sequence-based comparative secretome analysis reveals conserved core effectors and host lineage-specific divergence between monocot- and dicot-associated powdery mildew lineages [PDF]
Frontiers in Plant SciencePowdery mildew fungi are obligate biotrophs that parasitize living plant tissues and deploy secreted proteins to support host colonization. We compared predicted secretomes from 26 powdery mildew isolates representing five genera (Blumeria, Erysiphe ...
Noman Ali, Nan Wu, Mahinur S. Akkaya
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Methods in Ecology and Evolution, 2023 Comparative genomics has become an indispensable part of modern biology due to the advancements in high‐throughput sequencing technologies and the accumulation of genomic data in public databases.
Fabrício Almeida-Silva +1 more
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OrthoML2GO: homology-based protein function prediction using orthogroups and machine learning [PDF]
Вавиловский журнал генетики и селекцииIn recent years, the rapid growth of sequencing data has exacerbated the problem of functional annotation of protein sequences, as traditional homology-based methods face limitations when working with distant homologs, making it difficult to accurately ...
E. V. Malyugin, D. A. Afonnikov
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Finding Species-Specific Extracellular Surface-Facing Proteomes in Toxic Dinoflagellates
Toxins, 2021 As a sequel to our previous report of the existence of species-specific protein/peptide expression profiles (PEPs) acquired by mass spectrometry in some dinoflagellates, we established, with the help of a plasma-membrane-impermeable labeling agent, a ...
Kenrick Kai-yuen Chan +2 more
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RedoxiBase: A database for ROS homeostasis regulated proteins
Redox Biology, 2019 We present a new database, specifically devoted to ROS homeostasis regulated proteins. This database replaced our previous database, the PeroxiBase, which was focused only on various peroxidase families.
Qiang Li +2 more
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BMC Genomics, 2019 Background Salmonid fishes are characterised by a very high level of variation in trophic, ecological, physiological, and life history adaptations. Some salmonid taxa show exceptional potential for fast, within-lake diversification into morphologically ...
Kevin Schneider +2 more
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Different orthology inference algorithms generate similar predicted orthogroups among Brassicaceae species [PDF]
Applications in Plant SciencesPremise Orthology inference is crucial for comparative genomics, and multiple algorithms have been developed to identify putative orthologs for downstream analyses.
Irene T. Liao +3 more
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Integrative Transcriptomic and Evolutionary Analysis of Drought and Heat Stress Responses in Solanum tuberosum and Solanum lycopersicum [PDF]
PlantsAbiotic stresses such as drought and heat severely constrain the growth and productivity of Solanaceae crops, including potato (Solanum tuberosum L.) and tomato (Solanum lycopersicum L.), yet the conserved regulatory mechanisms underlying their stress ...
Eugeniya I. Bondar +3 more
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The landscape and evolutionary dynamics of derived lncRNAs in insects [PDF]
Communications BiologyLong noncoding RNAs (lncRNAs) function as crucial regulatory elements in eukaryotes, yet have remained largely unexplored across diverse insect lineages. We present a comprehensive analysis of lncRNA atlases across 115 insect species, identifying 647,691
Dong Jing +10 more
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Type IV minor pilin ComN predicted the USS-receptor in Pasteurellaceae [PDF]
Frontiers in MicrobiologyThe Uptake Signal Sequence (USS) receptor, which facilitates the acquisition of homologous DNA by natural transformation in Haemophilus influenzae and other members of the Pasteurellaceae, remains unknown.
Stian Aleksander Helsem +5 more
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