With increasing numbers of eukaryotic genome sequences, phylogenetic profiles of eukaryotic genes are becoming increasingly informative. Here, we introduce a new web-tool Phylopro (http://compsysbio.org/phylopro/), which uses the 120 available eukaryotic genome sequences to visualize the evolutionary trajectories of user-defined subsets of model organism genes. Applied to pathways or complexes, PhyloPro allows the user to rapidly identify core conserved elements of biological processes together with those that may represent lineage-specific innovations. PhyloPro thus provides a valuable resource for the evolutionary and comparative studies of biological systems.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.1093/bioinformatics/btr023 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Molecular Epidemiology of Type F Among Diarrheal Patients and Virulence-Resistance Dynamics - 11 Provinces, China, 2024.
China CDC Wkly
January 2025
Department of Clinical Laboratory, The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou City, Zhejiang Province, China.
Introduction: Type F () represents a significant pathogen in human gastrointestinal diseases, primarily through its gene encoding enterotoxin (CPE). This investigation examined the prevalence, antimicrobial resistance patterns, and genetic characteristics of Type F within the Chinese population.
Methods: The study analyzed 2,068 stool samples collected from 11 provincial hospitals in 2024.
Decrypting the phylogeny and metabolism of microbial dark matter in green and red Antarctic snow.
ISME Commun
January 2025
State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China.
Antarctic snow harbors diverse microorganisms, including pigmented algae and bacteria, which create colored snow patches and influence global climate and biogeochemical cycles. However, the genomic diversity and metabolic potential of colored snow remain poorly understood. We conducted a genome-resolved study of microbiomes in colored snow from 13 patches (7 green and 6 red) on the Fildes Peninsula, Antarctica.
View Article and Find Full Text PDFMetatranscriptomic time series insight into antibiotic resistance genes and mobile genetic elements in wastewater systems under antibiotic selective pressure.
BMC Microbiol
January 2025
Engineering Research Center of Health Emergency, Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, 210009, China.
Background: Wastewater systems are usually considered antibiotic resistance hubs connecting human society and the natural environment. Antibiotic usage can increase the abundance of both ARGs (antibiotic resistance genes) and MGEs (mobile gene elements). Understanding the transcriptomic profiles of ARGs and MGEs remains a major research goal.
View Article and Find Full Text PDFDiet quality components and gut microbiota of patients on peritoneal dialysis.
J Ren Nutr
January 2025
Division of Nephrology Universidade Federal de São Paulo, São Paulo, Brazil; Nutrition Program, Universidade Federal de São Paulo, São Paulo, Brazil. Electronic address:
Objective: To evaluate the associations between the quality of the diet and its components and microbial diversity and composition in peritoneal dialysis (PD) patients.
Design And Methods: This crossectional study included PD patients for at least 3 months, aged 18-75 years and clinically stable. The Diet Quality Index (DQI), validated for the Brazilian population, is based on the energy density of 11 components ("sugar and sweets"; "beef, pork and processed meat"; "refined grains and breads"; "animal fat"; "poultry, fish and eggs"; "whole cereals, tubers and roots"; "fruits"; "non-starch vegetables"; "legumes and nuts"; "milk and dairy products"; "vegetable oil").
Whole genome sequencing characterization of Clostridioides difficile from Bulgaria during the COVID-19 pandemic.
Diagn Microbiol Infect Dis
January 2025
National Reference Laboratory of Control and Monitoring of Antibiotic Resistance (NRL-CMAR), Department Microbiology, National Center of Infectious and Parasitic Diseases (NCIPD), 26 Yanko Sakazov Blvd., Sofia, Bulgaria.
Increased incidence of Clostridioides difficile infections were documented in Bulgarian hospitals during COVID-19. WGS was performed on 39 isolates from seven hospitals during 2015-2022. Antimicrobial resistance and toxin genes were inferred from genomes.
View Article and Find Full Text PDFWant AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!