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dc.rights.licenseopenen_US
hal.structure.identifierEnvironnements et Paléoenvironnements OCéaniques [EPOC]
dc.contributor.authorGONZALEZ, Patrice
ORCID: 0000-0003-2628-2993
IDREF: 14341917X
hal.structure.identifierUniversité de Bordeaux Ségalen [Bordeaux 2]
dc.contributor.authorLABARÈRE, Jacques
dc.date.accessioned2024-04-10T07:59:31Z
dc.date.available2024-04-10T07:59:31Z
dc.date.issued1998-12-01
dc.identifier.issn0099-2240en_US
dc.identifier.urihttps://www.researchgate.net/publication/13489730_Sequence_and_Secondary_Structure_of_the_Mitochondrial_Small-Subunit_rRNA_V4_V6_and_V9_Domains_Reveal_Highly_Species-Specific_Variations_within_the_GenusAgrocybe
dc.identifier.urioai:crossref.org:10.1128/aem.64.11.4149-4160.1998
dc.identifier.urioai:researchgate.net:13489730
dc.identifier.urihttps://oskar-bordeaux.fr/handle/20.500.12278/197390
dc.description.abstractEnABSTRACT A comparative study of variable domains V4, V6, and V9 of the mitochondrial small-subunit (SSU) rRNA was carried out with the genus Agrocybe by PCR amplification of 42 wild isolates belonging to 10 species, Agrocybe aegerita , Agrocybe dura , Agrocybe chaxingu , Agrocybe erebia , Agrocybe firma , Agrocybe praecox , Agrocybe paludosa , Agrocybe pediades , Agrocybe alnetorum , and Agrocybe vervacti . Sequencing of the PCR products showed that the three domains in the isolates belonging to the same species were the same length and had the same sequence, while variations were found among the 10 species. Alignment of the sequences showed that nucleotide motifs encountered in the smallest sequence of each variable domain were also found in the largest sequence, indicating that the sequences evolved by insertion-deletion events. Determination of the secondary structure of each domain revealed that the insertion-deletion events commonly occurred in regions not directly involved in the secondary structure (i.e., the loops). Moreover, conserved sequences ranging from 4 to 25 nucleotides long were found at the beginning and end of each domain and could constitute genus-specific sequences. Comparisons of the V4, V6, and V9 secondary structures resulted in identification of the following four groups: (i) group I, which was characterized by the presence of additional P23-1 and P23-3 helices in the V4 domain and the lack of the P49-1 helix in V9 and included A. aegerita , A. chaxingu , and A. erebia ; (ii) group II, which had the P23-3 helix in V4 and the P49-1 helix in V9 and included A. pediades ; (iii) group III, which did not have additional helices in V4, had the P49-1 helix in V9 and included A. paludosa , A. firma , A. alnetorum , and A. praecox ; and (iv) group IV, which lacked both the V4 additional helices and the P49-1 helix in V9 and included A. vervacti and A. dura . This grouping of species was supported by the structure of a consensus tree based on the variable domain sequences. The conservation of the sequences of the V4, V6, and V9 domains of the mitochondrial SSU rRNA within species and the high degree of interspecific variation found in the Agrocybe species studied open the way for these sequences to be used as specific molecular markers of the Basidiomycota.
dc.language.isoENen_US
dc.sourcecrossref
dc.sourceresearchgate
dc.title.enSequence and Secondary Structure of the Mitochondrial Small-Subunit rRNA V4, V6, and V9 Domains Reveal Highly Species-Specific Variations within the Genus Agrocybe
dc.typeArticle de revueen_US
dc.identifier.doi10.1128/aem.64.11.4149-4160.1998en_US
dc.subject.halSciences de l'environnementen_US
bordeaux.journalApplied and Environmental Microbiologyen_US
bordeaux.page4149-4160en_US
bordeaux.volume64en_US
bordeaux.hal.laboratoriesGénétique moléculaire et amélioration des champignons cultivésen_US
bordeaux.hal.laboratoriesEPOCen_US
bordeaux.issue11en_US
bordeaux.institutionUniversité de Bordeauxen_US
bordeaux.institutionCNRSen_US
bordeaux.teamEAen_US
bordeaux.peerReviewedouien_US
bordeaux.inpressnonen_US
bordeaux.import.sourcedissemin
hal.popularnonen_US
hal.audienceInternationaleen_US
hal.exportfalse
workflow.import.sourcedissemin
dc.rights.ccPas de Licence CCen_US
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Applied%20and%20Environmental%20Microbiology&rft.date=1998-12-01&rft.volume=64&rft.issue=11&rft.spage=4149-4160&rft.epage=4149-4160&rft.eissn=0099-2240&rft.issn=0099-2240&rft.au=GONZALEZ,%20Patrice&LABAR%C3%88RE,%20Jacques&rft.genre=article


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