{"doi":"10.1099/ijsem.0.002492","title":"Re-classification of Clavibacter michiganensis subspecies on the basis of whole-genome and multi-locus sequence analyses","abstract":"<jats:p>Although the genus <jats:italic>\n                     <jats:named-content content-type=\"genus\">\n                        <jats:ext-link xmlns:xlink=\"http://www.w3.org/1999/xlink\" ext-link-type=\"uri\" xlink:href=\"https://doi.org/10.1601/nm.6104\">Clavibacter</jats:ext-link>\n                     </jats:named-content>\n                  </jats:italic> was originally proposed to accommodate all phytopathogenic coryneform bacteria containing B2γ diaminobutyrate in the peptidoglycan, reclassification of all but one species into other genera has resulted in the current monospecific status of the genus. The single species in the genus, <jats:italic>\n                     <jats:named-content content-type=\"species\">\n                        <jats:ext-link xmlns:xlink=\"http://www.w3.org/1999/xlink\" ext-link-type=\"uri\" xlink:href=\"https://doi.org/10.1601/nm.10662\">Clavibacter michiganensis</jats:ext-link>\n                     </jats:named-content>\n                  </jats:italic>, has multiple subspecies, which are all highly host-specific plant pathogens. Whole genome analysis based on average nucleotide identity and digital DNA–DNA hybridization as well as multi-locus sequence analysis (MLSA) of seven housekeeping genes support raising each of the <jats:italic>\n                     <jats:named-content content-type=\"species\">\n                        <jats:ext-link xmlns:xlink=\"http://www.w3.org/1999/xlink\" ext-link-type=\"uri\" xlink:href=\"https://doi.org/10.1601/nm.10662\">C. michiganensis</jats:ext-link>\n                     </jats:named-content>\n                  </jats:italic> subspecies to species status. On the basis of whole genome and MLSA data, we propose the establishment of two new species and three new combinations: <jats:italic>Clavibacter capsici</jats:italic> sp. nov., comb. nov. and <jats:italic>Clavibacter tessellarius</jats:italic> sp. nov., comb. nov., and <jats:italic>Clavibacter insidiosus</jats:italic> comb. nov., <jats:italic>Clavibacter nebraskensis</jats:italic> comb. nov. and <jats:italic>Clavibacter sepedonicus</jats:italic> comb. nov.</jats:p>","journal":"International Journal of Systematic and Evolutionary Microbiology","year":2018,"id":637063,"datarank":0.7379971388742189,"base_score":4.919980925828125,"endowment":4.919980925828125,"self_citation_contribution":0.7379971388742189,"citation_network_contribution":0.0,"self_endowment_contribution":0.7379971388742189,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":136,"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":1653927,"name":"James Tambong","orcid":null,"position":1,"is_corresponding":false},{"id":1653929,"name":"Kat (Xiaoli) Yuan","orcid":null,"position":2,"is_corresponding":false},{"id":447857,"name":"Wen Chen","orcid":"0000-0001-7563-4495","position":3,"is_corresponding":false},{"id":1149095,"name":"Huimin Xu","orcid":"0000-0002-1918-7317","position":4,"is_corresponding":false},{"id":1653930,"name":"C. André Lévesque","orcid":null,"position":5,"is_corresponding":false},{"id":1653931,"name":"Solke H. De Boer","orcid":null,"position":6,"is_corresponding":false},{"id":603440,"name":"Xiang Li","orcid":"0000-0003-0724-0982","position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Re-classification of Clavibacter michiganensis subspecies on the basis of whole-genome and multi-locus sequence analyses","abstract":"<jats:p>Although the genus <jats:italic>\n                     <jats:named-content content-type=\"genus\">\n                        <jats:ext-link xmlns:xlink=\"http://www.w3.org/1999/xlink\" ext-link-type=\"uri\" xlink:href=\"https://doi.org/10.1601/nm.6104\">Clavibacter</jats:ext-link>\n                     </jats:named-content>\n                  </jats:italic> was originally proposed to accommodate all phytopathogenic coryneform bacteria containing B2γ diaminobutyrate in the peptidoglycan, reclassification of all but one species into other genera has resulted in the current monospecific status of the genus. The single species in the genus, <jats:italic>\n                     <jats:named-content content-type=\"species\">\n                        <jats:ext-link xmlns:xlink=\"http://www.w3.org/1999/xlink\" ext-link-type=\"uri\" xlink:href=\"https://doi.org/10.1601/nm.10662\">Clavibacter michiganensis</jats:ext-link>\n                     </jats:named-content>\n                  </jats:italic>, has multiple subspecies, which are all highly host-specific plant pathogens. Whole genome analysis based on average nucleotide identity and digital DNA–DNA hybridization as well as multi-locus sequence analysis (MLSA) of seven housekeeping genes support raising each of the <jats:italic>\n                     <jats:named-content content-type=\"species\">\n                        <jats:ext-link xmlns:xlink=\"http://www.w3.org/1999/xlink\" ext-link-type=\"uri\" xlink:href=\"https://doi.org/10.1601/nm.10662\">C. michiganensis</jats:ext-link>\n                     </jats:named-content>\n                  </jats:italic> subspecies to species status. On the basis of whole genome and MLSA data, we propose the establishment of two new species and three new combinations: <jats:italic>Clavibacter capsici</jats:italic> sp. nov., comb. nov. and <jats:italic>Clavibacter tessellarius</jats:italic> sp. nov., comb. nov., and <jats:italic>Clavibacter insidiosus</jats:italic> comb. nov., <jats:italic>Clavibacter nebraskensis</jats:italic> comb. nov. and <jats:italic>Clavibacter sepedonicus</jats:italic> comb. nov.</jats:p>","is_dataset_classified":null,"base_score":4.770684624465665,"endowment":4.770684624465665,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"29160202","pmcid":"PMC5882085","openalex_id":"https://openalex.org/W2768581843","authors":[],"funders":[{"funder_name":"Croatian Science Foundation","grant_id":"0000","title":"Coordination reactions of macrocyclic ligands in solution"}],"total_grants":1,"fwci":26.2859,"citation_percentile":0.99543757,"influential_citations":0,"citation_trend":[{"year":2017,"count":1},{"year":2018,"count":11},{"year":2019,"count":15},{"year":2020,"count":16},{"year":2021,"count":15},{"year":2022,"count":16},{"year":2023,"count":17},{"year":2024,"count":14},{"year":2025,"count":9},{"year":2026,"count":3}],"oa_status":"hybrid","license":"cc-by","oa_locations":[{"url":"https://doi.org/10.1099/ijsem.0.002492","host_type":"journal"},{"url":"https://doi.org/10.1099/ijsem.0.002492","host_type":"publisher"},{"url":"https://www.microbiologyresearch.org/content/journal/ijsem/10.1099/ijsem.0.002492?crawler=true&mimetype=application/pdf","host_type":"publisher"},{"url":"https://pubmed.ncbi.nlm.nih.gov/29160202","host_type":"repository"},{"url":"http://europepmc.org/pmc/articles/PMC5882085","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5882085","host_type":"repository"},{"url":"https://europepmc.org/articles/PMC5882085","host_type":"Europe_PMC"},{"url":"https://europepmc.org/articles/PMC5882085?pdf=render","host_type":"Europe_PMC"},{"url":"http://dx.doi.org/10.1099/ijsem.0.002492","host_type":""},{"url":"https://dx.doi.org/10.1099/ijsem.0.002492","host_type":""}],"fields_of_study":["Plant Pathogenic Bacteria Studies","Genomics and Phylogenetic Studies","Legume Nitrogen Fixing Symbiosis","0301 basic medicine","03 medical and health sciences","Bacterial Typing Techniques","DNA, Bacterial","Genome, Bacterial","Micrococcaceae","Multilocus Sequence Typing","Nucleic Acid Hybridization","Phylogeny","Sequence Analysis, DNA"],"mesh_terms":["DNA, Bacterial","Micrococcaceae","Nucleic Acid Hybridization","Phylogeny","Bacterial Typing Techniques","Genome, Bacterial","Sequence Analysis, DNA","Multilocus Sequence Typing"],"keywords":["Biology","Clavibacter michiganensis","Subspecies","Housekeeping gene","Whole genome sequencing","Microbiology","Locus (genetics)","Genome","Genetics","Sequence analysis","Gene","Bacteria","Zoology","Gene expression","Clavibacter Capsici","Clavibacter Insidiosus","Clavibacter Nebraskensis","Clavibacter Sepedonicus","Clavibacter Tessellarius","DNA, Bacterial","Taxonomic Description","Nucleic Acid Hybridization","Sequence Analysis, DNA","Genome, Bacterial","Phylogeny","Bacterial Typing Techniques","Micrococcaceae","Multilocus Sequence Typing"],"sdg_mappings":[{"sdg_number":0,"sdg_label":"Life in Land"}],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[{"name":"gen"},{"name":"refseq"}],"source":"live","citation_network_status":"fetched"},"created_at":"2026-08-06T18:14:06.098989Z","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":[]}