GenoTrack, a Webtool to Geospatially Link Bacterial Genomes from Environmental and Clinical Settings

Authors: Ekwanzala, Mutshiene Deogratias, Momba, Maggy Ndombo Benteke

Source: 2022 IST-Africa Conference (IST-Africa) IST-Africa Conference (IST-Africa), 2022. :1-10 May, 2022

Relation: 2022 IST-Africa Conference (IST-Africa)

Loss of Lateral suppressor gene is associated with evolution of root nodule symbiosis in Leguminosae

Authors: Tengfei Liu, Zhi Liu, Jingwei Fan, Yaqin Yuan, Haiyue Liu, Wenfei Xian, Shuaiying Xiang, Xia Yang, Yucheng Liu, Shulin Liu, Min Zhang, Yuannian Jiao, Shifeng Cheng, Jeff J. Doyle, Fang Xie, Jiayang Li, Zhixi Tian

Source: Genome Biology, Vol 25, Iss 1, Pp 1-24 (2024)

Subject Terms: Evolution of root nodule symbiosis, Leguminosae, Phylogenomic analysis, Gene loss, Lateral suppressor, Biology (General), QH301-705.5, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1474-760X

Access URL: https://doaj.org/article/1542e6773c0844c7885cbceb37f61b16

Draft genome sequence data of Serratia marcescens strain harboring blaNDM-7 from Dhaka, BangladeshNCBI BioSample

Authors: K.M. Shayerul Abedin Shayer, Sabbir R. Shuvo, Ishrat Jabeen, Mahmud Hossain, Sohidul Islam

Source: Data in Brief, Vol 57, Iss , Pp 111133- (2024)

Subject Terms: Serratia marcescens, WGS, Multidrug resistance, NDM-7, Phylogenomic analysis, Computer applications to medicine. Medical informatics, R858-859.7, Science (General), Q1-390

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2352340924010953; https://doaj.org/toc/2352-3409

Access URL: https://doaj.org/article/7c80bd913ce644dd9baf8d8e7b2a1fce

Draft genome sequencing data of multidrug-resistant Staphylococcus haemolyticus from Bangladeshi hospitals

Authors: Jarin Tabassum, Afia Anjum, Sohidul Islam, Abdul Khaleque, Ishrat Jabeen, Sabbir R. Shuvo

Source: Data in Brief, Vol 57, Iss , Pp 110918- (2024)

Subject Terms: S. haemolyticus, WGS, Antibiotic resistance, Phylogenomic analysis, Computer applications to medicine. Medical informatics, R858-859.7, Science (General), Q1-390

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2352340924008813; https://doaj.org/toc/2352-3409

Access URL: https://doaj.org/article/46ded3d2d229434ebafdbdcc17636f63

Microevolution of Bartonella grahamii driven by geographic and host factors

Authors: Ailing Xu, Liang Lu, Wen Zhang, Xiuping Song, Guichang Li, Yu Miao, Ruixiao Li, Min Chen, Qiyong Liu, Dongmei Li

Source: mSystems, Vol 9, Iss 10 (2024)

Subject Terms: Bartonella grahamii, population structure, comparative genomics, phylogenomic analysis, phylogeography, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2379-5077

Access URL: https://doaj.org/article/622044dea3dd4e82ac84c5aa7d2f8691

The complete chloroplast genome of Illicium simonsii Maxim. (Illiciaceae), a species with important medicinal properties

Authors: Fuqin Zhou, Yunqi Liu, Shuang Xiong, Yuan Huang

Source: Mitochondrial DNA. Part B. Resources, Vol 9, Iss 5, Pp 678-682 (2024)

Subject Terms: Chloroplast genome, Illicium simonsii, phylogenomic analysis, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/2380-2359

Access URL: https://doaj.org/article/15c8c60d641e4efe82353d3030f847a8

Whole Genome Analysis of Streptomyces spp. Strains Isolated from the Rhizosphere of Vitis vinifera L. Reveals Their Role in Nitrogen and Phosphorus Metabolism

Authors: Gustavo Montes-Montes, Román González-Escobedo, Laila N. Muñoz-Castellanos, Graciela D. Avila-Quezada, Obed Ramírez-Sánchez, Alejandra Borrego-Loya, Ismael Ortiz-Aguirre, Zilia Y. Muñoz-Ramírez

Source: Nitrogen, Vol 5, Iss 2, Pp 301-314 (2024)

Subject Terms: Streptomyces, nitrogen metabolism, phosphorus metabolism, grapevine, sustainable agriculture, phylogenomic analysis, Ecology, QH540-549.5

File Description: electronic resource

Relation: https://www.mdpi.com/2504-3129/5/2/20; https://doaj.org/toc/2504-3129

Access URL: https://doaj.org/article/2826bfc7f464460dba6d52dd5163bac4

SARS-CoV-2 XEC: A Genome-Based Survey

Authors: Fabio Scarpa, Francesco Branda, Giancarlo Ceccarelli, Chiara Romano, Chiara Locci, Noemi Pascale, Ilenia Azzena, Pier Luigi Fiori, Marco Casu, Stefano Pascarella, Miriana Quaranta, Domenico Benvenuto, Roberto Cauda, Massimo Ciccozzi, Daria Sanna

Source: Microorganisms, Vol 13, Iss 2, p 253 (2025)

Subject Terms: genetic diversity, SARS-CoV-2, XEC recombinant, viral recombination, genomic surveillance, phylogenomic analysis, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://www.mdpi.com/2076-2607/13/2/253; https://doaj.org/toc/2076-2607

Access URL: https://doaj.org/article/c580d92c32944bf890116fd69e73143f

The complete chloroplast genome of Psydrax latifolia: evolutionary dynamics, comparative genomics and phylogeny

Authors: Fatmah Ahmed Safhi, Areej Saud Jalal, Rana M. Alshegaihi, Rahma Alshamrani, Amnah M. Alamri, Wessam Felemban, Amani Omar Abuzaid, Mohammed A. A. Hussein, Nora M. Al Aboud, Mahmoud Magdy, Diaa Abd El-Moneim

Source: Frontiers in Ecology and Evolution, Vol 12 (2024)

Subject Terms: Psydrax latifolia, wild plants, applied genomics, phylogenomic analysis, plastome, Evolution, QH359-425, Ecology, QH540-549.5

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fevo.2024.1416876/full; https://doaj.org/toc/2296-701X

Access URL: https://doaj.org/article/e9304a656fa34e27b6262aaf5ea21304

Dynamic antimicrobial resistance and phylogenomic structure of Salmonella Typhimurium from 2007 to 2019 in Shanghai, China

Authors: Zengfeng Zhang, Mengjun Hu, Xuebin Xu, Chao Lv, Chunlei Shi

Source: Microbiology Spectrum, Vol 12, Iss 8 (2024)

Subject Terms: Salmonella Typhimurium, antimicrobial resistance, phylogenomic analysis, IncI (Gamma) plasmids, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2165-0497

Access URL: https://doaj.org/article/79444586d0d844ca8480861f8abbe0fa

Aspergillus brasiliensis E_15.1: A Novel Thermophilic Endophyte from a Volcanic Crater Unveiled through Comprehensive Genome-Wide, Phenotypic Analysis, and Plant Growth-Promoting Trails

Authors: Amanda Martirena-Ramírez, José Germán Serrano-Gamboa, Yordanis Pérez-Llano, Claribel Orquídea Zenteno-Alegría, Mario León Iza-Arteaga, María del Rayo Sánchez-Carbente, Ana María Fernández-Ocaña, Ramón Alberto Batista-García, Jorge Luis Folch-Mallol

Source: Journal of Fungi, Vol 10, Iss 8, p 517 (2024)

Subject Terms: Aspergillus brasiliensis, endophytic fungus, extreme environments, thermophilic, phylogenomic analysis, plant growth-promoting fungus, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://www.mdpi.com/2309-608X/10/8/517; https://doaj.org/toc/2309-608X

Access URL: https://doaj.org/article/852ab35ba54541399e6638b345359971

Genomic analysis of multidrug-resistant Delftia tsuruhatensis isolated from raw bovine milk

Authors: Pavel A. Andriyanov, Daria D. Kashina, Alena N. Menshikova

Source: Frontiers in Microbiology, Vol 14 (2024)

Subject Terms: Delftia tsuruhatensis, antimicrobial resistance (AMR), genomics, raw milk, phylogenomic analysis, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2023.1321122/full; https://doaj.org/toc/1664-302X

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The complete chloroplast genome of Primula vialii (Primulaceae), an ornamental plant

Authors: Yunqi Liu, Li Zhang, Shubao Wang, Rui Li, Yuan Huang

Source: Mitochondrial DNA. Part B. Resources, Vol 8, Iss 5, Pp 619-623 (2023)

Subject Terms: chloroplast genome, primula vialii, phylogenomic analysis, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/2380-2359

Access URL: https://doaj.org/article/91f4d5643748466b871cd7466470a176

Comparative genomics provides insights into the phylogeny and environmental adaptations of Peritrichia (Protista, Ciliophora) – A potential resource for environmental pollution control and bioremediation

Authors: Zhang, Ying ^a, Dou, Huan ^a, Fu, Yu ^a, Liang, Fasheng ^a, Wang, Zhe ^a, Warren, Alan ^b, Li, Lifang ^{a, ⁎}

Source: In Molecular Phylogenetics and Evolution September 2023 186

The Divisible Load Balance Problem with Shared Cost and Its Application to Phylogenetic Inference

Authors: Scholl, Constantin, Kobert, Kassian, Flouri, Toma, Stamatakis, Alexandros

Source: 2016 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW) Parallel and Distributed Processing Symposium Workshops, 2016 IEEE International. :408-417 May, 2016

Relation: 2016 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW)

Distinct evolution of ST11 KL64 Klebsiella pneumoniae in Taiwan

Authors: Yia-Ting Li, Yao-Chen Wang, Chih-Ming Chen, Hui-Ling Tang, Bo-Han Chen, Ru-Hsiou Teng, Chien-Shun Chiou, Min-Chi Lu, Yi-Chyi Lai

Source: Frontiers in Microbiology, Vol 14 (2023)

Subject Terms: Klebsiella pneumoniae, ST11, KL64_Clade I, phylogenomic analysis, plasmids, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2023.1291540/full; https://doaj.org/toc/1664-302X

Access URL: https://doaj.org/article/05fa4f60eb7d4149809e8ddd1091d3a3

Phylogenomic analysis of Bupleurum in Western Sichuan, China, including an overlooked new species

Authors: Zhi Chao, Xiaoxi Hong, Xuena Xie, Rong Huang, Enwei Tian

Source: Frontiers in Plant Science, Vol 14 (2023)

Subject Terms: Bupleurum, Western Sichuan, chloroplast genome, nuclear ribosomal DNA, phylogenomic analysis, Bupleurum pseudochaishoui Z. Chao sp. nov., Plant culture, SB1-1110

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fpls.2023.1294670/full; https://doaj.org/toc/1664-462X

Access URL: https://doaj.org/article/a55611e3c0794d3fb9cdfd4ae4f65073

Editorial: Phylogenomic discordance in plant systematics

Authors: Stefan Wanke, Susann Wicke

Source: Frontiers in Plant Science, Vol 14 (2023)

Subject Terms: gene tree, species tree, incomplete lineage sorting, plastid (chloroplast) DNA, phylogenetic discordance, phylogenomic analysis, Plant culture, SB1-1110

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fpls.2023.1308126/full; https://doaj.org/toc/1664-462X

Access URL: https://doaj.org/article/723eeca6250d4900ab504d8932d5a346

A Diverging Species within the Stewartia gemmata (Theaceae) Complex Revealed by RAD-Seq Data

Authors: Hanyang Lin, Wenhao Li, Yunpeng Zhao

Source: Plants, Vol 13, Iss 10, p 1296 (2024)

Subject Terms: nascent species, peripatric distribution, RAD-seq, phylogenomic analysis, taxonomic implication, Botany, QK1-989

File Description: electronic resource

Relation: https://www.mdpi.com/2223-7747/13/10/1296; https://doaj.org/toc/2223-7747

Access URL: https://doaj.org/article/7d15063647964ede89c33b2f364be5ad

Functional Genomics of a Collection of Gammaproteobacteria Isolated from Antarctica

Authors: Michele Giovannini, Walter Vieri, Emanuele Bosi, Christopher Riccardi, Angelina Lo Giudice, Renato Fani, Marco Fondi, Elena Perrin

Source: Marine Drugs, Vol 22, Iss 6, p 238 (2024)

Subject Terms: Antarctic bacteria, Gammaproteobacteria, genome sequencing, secondary metabolite biosynthesis, phylogenomic analysis, cold-shock proteins, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://www.mdpi.com/1660-3397/22/6/238; https://doaj.org/toc/1660-3397

Access URL: https://doaj.org/article/7109b021b80f41489156867f8e9a0d72