{"doi":"10.1371/journal.pone.0042639","title":"Genome-Wide Detection of Spontaneous Chromosomal Rearrangements in Bacteria","abstract":null,"journal":"PLoS ONE","year":2012,"id":621266,"datarank":0.5742962094733643,"base_score":3.828641396489095,"endowment":3.828641396489095,"self_citation_contribution":0.5742962094733643,"citation_network_contribution":0.0,"self_endowment_contribution":0.5742962094733643,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":45,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1604111,"name":"Rongqin Ke","orcid":"0000-0002-9868-3713","position":1,"is_corresponding":false},{"id":703167,"name":"Diarmaid Hughes","orcid":"0000-0002-7456-9182","position":2,"is_corresponding":false},{"id":24374,"name":"Mats Nilsson","orcid":"0000-0001-9985-0387","position":3,"is_corresponding":false},{"id":693673,"name":"Dan I. Andersson","orcid":"0000-0001-6640-2174","position":4,"is_corresponding":false},{"id":166016,"name":"Song Sun","orcid":null,"position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Genome-Wide Detection of Spontaneous Chromosomal Rearrangements in Bacteria","abstract":"Genome rearrangements have important effects on bacterial phenotypes and influence the evolution of bacterial genomes. Conventional strategies for characterizing rearrangements in bacterial genomes rely on comparisons of sequenced genomes from related species. However, the spectra of spontaneous rearrangements in supposedly homogenous and clonal bacterial populations are still poorly characterized. Here we used 454 pyrosequencing technology and a 'split mapping' computational method to identify unique junction sequences caused by spontaneous genome rearrangements in chemostat cultures of Salmonella enterica Var. Typhimurium LT2. We confirmed 22 unique junction sequences with a junction microhomology more than 10 bp and this led to an estimation of 51 true junction sequences, of which 28, 12 and 11 were likely to be formed by deletion, duplication and inversion events, respectively. All experimentally confirmed rearrangements had short inverted (inversions) or direct (deletions and duplications) homologous repeat sequences at the endpoints. This study demonstrates the feasibility of genome wide characterization of spontaneous genome rearrangements in bacteria and the very high steady-state frequency (20-40%) of rearrangements in bacterial populations.","is_dataset_classified":null,"base_score":3.828641396489095,"endowment":3.828641396489095,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"22880062","pmcid":"PMC3411829","openalex_id":"https://openalex.org/W2166575253","authors":[],"funders":[{"funder_name":"European Commission","grant_id":"241476","title":"Predicting antibiotic resistance"}],"total_grants":1,"fwci":2.1187,"citation_percentile":0.87567202,"influential_citations":0,"citation_trend":[{"year":2013,"count":3},{"year":2014,"count":10},{"year":2015,"count":3},{"year":2016,"count":2},{"year":2017,"count":1},{"year":2018,"count":1},{"year":2020,"count":5},{"year":2021,"count":3},{"year":2022,"count":6},{"year":2023,"count":1},{"year":2024,"count":7},{"year":2025,"count":3}],"oa_status":"gold","license":"cc-by","oa_locations":[{"url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0042639&type=printable","host_type":"journal"},{"url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0042639&type=printable","host_type":"publisher"},{"url":"https://doi.org/10.1371/journal.pone.0042639","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/22880062","host_type":"repository"},{"url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-181864","host_type":"repository"},{"url":"https://doaj.org/article/ede8f2edc46d46e9a26118b76489b429","host_type":"repository"},{"url":"https://figshare.com/articles/dataset/Genome_Wide_Detection_of_Spontaneous_Chromosomal_Rearrangements_in_Bacteria/121592","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3411829","host_type":"repository"},{"url":"https://europepmc.org/articles/PMC3411829","host_type":"Europe_PMC"},{"url":"https://europepmc.org/articles/PMC3411829?pdf=render","host_type":"Europe_PMC"},{"url":"http://dx.doi.org/10.1371/journal.pone.0042639","host_type":""},{"url":"https://dx.doi.org/10.1371/journal.pone.0042639","host_type":""}],"fields_of_study":["Genomics and Phylogenetic Studies","Chromosomal and Genetic Variations","Plant Pathogenic Bacteria Studies","0301 basic medicine","0303 health sciences","03 medical and health sciences","Chromosomes, Bacterial","Gene Rearrangement","Genes, Bacterial","Genome, Bacterial","Molecular Sequence Data","Reproducibility of Results","Salmonella enterica","Sequence Analysis, DNA","Sequence Deletion"],"mesh_terms":["Chromosomes, Bacterial","Genes, Bacterial","Molecular Sequence Data","Reproducibility of Results","Gene Rearrangement","Genome, Bacterial","Sequence Deletion","Sequence Analysis, DNA","Salmonella enterica"],"keywords":["Genome","Biology","Bacterial genome size","Genetics","Genome evolution","Gene duplication","Gene rearrangement","Chromosomal inversion","Pyrosequencing","Gene","Computational biology","Chromosome","Karyotype","Medicin och hälsovetenskap","Science","Q","Molecular Sequence Data","R","Reproducibility of Results","Salmonella enterica","Sequence Analysis, DNA","Chromosomes, Bacterial","Medical and Health Sciences","Genes, Bacterial","Medicine","Genome, Bacterial","Research Article","Sequence Deletion"],"sdg_mappings":[],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[{"name":"gen"}],"source":"live","citation_network_status":"fetched"},"created_at":"2026-08-03T13:53:16.132424Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}