Ichizo Kobayashi
University of Tokyo
Publications 162
#1Iwona Mruk (University of Gdańsk)H-Index: 8
#2Ichizo Kobayashi (UTokyo: University of Tokyo)H-Index: 39
#1Ikuo Uchiyama (National Institute for Basic Biology, Japan)H-Index: 32
#2Jacob Albritton (UTokyo: University of Tokyo)H-Index: 1
Last.Ichizo KobayashiH-Index: 39
view all 6 authors...
Genomes of a given bacterial species can show great variation in gene content and thus systematic analysis of the entire gene repertoire, termed the pan-genome, is important for understanding bacterial intra-species diversity, population genetics, and evolution. Here, we analyzed the pan-genome from 30 completely sequenced strains of the human gastric pathogen Helicobacter pylori belonging to various phylogeographic groups, focusing on 991 accessory (not fully conserved) orthologous groups (OGs)...
#1Koji Yahara (Swansea University)H-Index: 11
#2Yoshikazu Furuta (UTokyo: University of Tokyo)H-Index: 14
Last.Ichizo Kobayashi (UTokyo: University of Tokyo)H-Index: 39
view all 10 authors...
Selection has been a central issue in biology in eukaryotes as well as prokaryotes. Inference of selection in recombining bacterial species, compared with clonal ones, has been a challenge. It is not known how codons under diversifying selection are distributed along the chromosome or among functional categories or how frequently such codons are subject to mutual homologous recombination. Here, we explored these questions by analysing genes present in >90% among 29 genomes of Helicobacter pylori...
#1Koji Yahara (Swansea University)H-Index: 9
#2Xavier Didelot (Imperial College London)H-Index: 48
Last.Daniel Falush (Swansea University)H-Index: 2
view all 7 authors...
Recombination enhances the adaptive potential of organisms by allowing genetic variants to be tested on multiple genomic backgrounds. Its distribution in the genome can provide insight into the evolutionary forces that underlie traits, such as the emergence of pathogenicity. Here, we examined landscapes of realized homologous recombination of 500 genomes from ten bacterial species and found all species have “hot” regions with elevated rates relative to the genome average. We examined the size, g...