1887

Abstract

A detailed evaluation of eight bacterial isolates from floral nectar and animal visitors to flowers shows evidence that they represent three novel species in the genus . Phylogenomic analysis shows the closest relatives of these new isolates are , and , previously described species associated with floral nectar and bees, but high genome-wide sequence divergence defines these isolates as novel species. Pairwise comparisons of the average nucleotide identity of the new isolates compared to known species is extremely low (<83 %), thus confirming that these samples are representative of three novel species, for which the names sp. nov., sp. nov. and sp. nov. are proposed. The respective type strains are SCC477 (=TSD-214=LMG 31655), B10A (=TSD-213=LMG 31702) and EC24 (=TSD-215=LMG 31703=DSM 111781).

Funding
This study was supported by the:
  • National Science Foundation (US) (Award DEB 1737758)
    • Principle Award Recipient: TadashiFukami
  • National Science Foundation (US) (Award DEB 1846266)
    • Principle Award Recipient: RachelL. Vannette
  • U.S. Department of Energy (US) (Award DE-AC52-07NA27344)
    • Principle Award Recipient: MeganM. Morris
  • Ministerio de Ciencia e Innovación (ES) (Award RYC2018-023847-I)
    • Principle Award Recipient: SergioAlvarez-Perez
  • H2020 Marie Skłodowska-Curie Actions (Award 742964)
    • Principle Award Recipient: SergioAlvarez-Perez
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2021-05-10
2024-04-25
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References

  1. Li Y, Piao CG, Ma Y-C, He W, Wang H-M et al. Acinetobacter puyangensis sp. nov., isolated from the healthy and diseased part of Populus xeuramericana canker bark. Int J Syst Evol Microbiol 2013; 63:2963–2969 [View Article][PubMed]
    [Google Scholar]
  2. Li Y, He W, Wang T, Piao CG, Guo LM et al. Acinetobacter qingfengensis sp. nov., isolated from canker bark of Populus x euramericana. Int J Syst Evol Microbiol 2014; 64:1043–1050 [View Article][PubMed]
    [Google Scholar]
  3. Li Y, Chang J, Guo L-M, Wang H-M, Xie S-J et al. Description of acinetobacter populi sp. Nov. Isolated from symptomatic bark of Populus x euramericana canker. Int J Syst Evol Microbiol 2015; 65:4461–4468 [View Article][PubMed]
    [Google Scholar]
  4. Liu Y, Rao Q, Tu J, Zhang J, Huang M et al. Acinetobacter piscicola sp. Nov., isolated from diseased farmed Murray cod (Maccullochella peelii PEELII. Int J Syst Evol Microbiol 2018; 68:905–910 [View Article][PubMed]
    [Google Scholar]
  5. Poppel MT, Skiebe E, Laue M, Bergmann H, Ebersberger I et al. Acinetobacter equi sp. nov., isolated from horse faeces. Int J Syst Evol Microbiol 2016; 66:881–888 [View Article][PubMed]
    [Google Scholar]
  6. Rooney AP, Dunlap CA, Flor-Weiler LB. Acinetobacter lactucae sp. nov., isolated from iceberg lettuce (Asteraceae: Lactuca sativa). Int J Syst Evol Microbiol 2016; 66:3566–3572 [View Article][PubMed]
    [Google Scholar]
  7. Álvarez-Pérez S, Lievens B, Jacquemyn H, Herrera CM. Acinetobacter nectaris sp. nov. and Acinetobacter boissieri sp. nov., isolated from floral nectar of wild Mediterranean insect-pollinated plants. Int J Syst Evol Microbiol 2013; 63:1532–1539 [View Article][PubMed]
    [Google Scholar]
  8. Kim PS, Shin NR, Kim JY, Yun JH, Hyun DW et al. Acinetobacter apis sp. nov., isolated from the intestinal tract of a honey bee, Apis mellifera. J Microbiol 2014; 52:639–645 [View Article][PubMed]
    [Google Scholar]
  9. Alvarez-Pérez S, Herrera CM. Composition, richness and nonrandom assembly of culturable bacterial-microfungal communities in floral nectar of Mediterranean plants. FEMS Microbiol Ecol 2013; 83:685–699 [View Article][PubMed]
    [Google Scholar]
  10. Álvarez-Pérez S, Lievens B, Fukami T. Yeast-bacterium interactions: the next frontier in nectar research. Trends Plant Sci 2019; 24:393–401 [View Article][PubMed]
    [Google Scholar]
  11. Bartlewicz J, Lievens B, Honnay O, Jacquemyn H. Microbial diversity in the floral nectar of Linaria vulgaris along an urbanization gradient. BMC Ecol 2016; 16:18 [View Article][PubMed]
    [Google Scholar]
  12. Fridman S, Izhaki I, Gerchman Y, Halpern M. Bacterial communities in floral nectar. Environ Microbiol Rep 2012; 4:97–104 [View Article][PubMed]
    [Google Scholar]
  13. Morris MM, Frixione NJ, Burkert AC, Dinsdale EA, Vannette RL. Microbial abundance, composition, and function in nectar are shaped by flower visitor identity. FEMS Microbiol Ecol 2020; 96:fiaa003 [View Article][PubMed]
    [Google Scholar]
  14. Tsuji K, Fukami T. Community-Wide consequences of sexual dimorphism: evidence from nectar microbes in dioecious plants. Ecology 2018; 99:2476–2484 [View Article][PubMed]
    [Google Scholar]
  15. Vannette RL, Fukami T. Dispersal enhances beta diversity in nectar microbes. Ecol Lett 2017; 20:901–910 [View Article][PubMed]
    [Google Scholar]
  16. Bosmans L, Pozo MI, Verreth C, Crauwels S, Wäckers F et al. Hibernation leads to altered gut communities in bumblebee Queens (Bombus terrestris). Insects 2018; 9:188 [View Article][PubMed]
    [Google Scholar]
  17. Bushnell B. BBMap: a fast, accurate, splice-aware aligner, joint genome Instritute. department of energy 2014
    [Google Scholar]
  18. Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 2015; 25:1043–1055 [View Article][PubMed]
    [Google Scholar]
  19. Yoon SH, Ha S-M, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article][PubMed]
    [Google Scholar]
  20. Segata N, Börnigen D, Morgan XC, Huttenhower C. PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes. Nat Commun 2013; 4:2304 [View Article][PubMed]
    [Google Scholar]
  21. Nguyen LT, Schmidt HA, von Haeseler A, Minh BQ. IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Mol Biol Evol 2015; 32:268–274 [View Article][PubMed]
    [Google Scholar]
  22. Kalyaanamoorthy S, Minh BQ, Wong TKF, von Haeseler A, Jermiin LS. ModelFinder: fast model selection for accurate phylogenetic estimates. Nat Methods 2017; 14:587–589 [View Article][PubMed]
    [Google Scholar]
  23. Edgar RC. Search and clustering orders of magnitude faster than blast. Bioinformatics 2010; 26:2460–2461 [View Article][PubMed]
    [Google Scholar]
  24. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 2009; 106:19126–19131 [View Article][PubMed]
    [Google Scholar]
  25. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461–466 [View Article][PubMed]
    [Google Scholar]
  26. Konstantinidis KT, Tiedje JM. Genomic insights that advance the species definition for prokaryotes. Proc Natl Acad Sci U S A 2005; 102:2567–2572 [View Article][PubMed]
    [Google Scholar]
  27. Nemec A, Musílek M, Maixnerová M, De Baere T, van der Reijden TJ et al. Acinetobacter beijerinckii sp. nov. and Acinetobacter gyllenbergii sp. nov., haemolytic organisms isolated from humans. Int J Syst Evol Microbiol 2009; 59:118–124 [View Article][PubMed]
    [Google Scholar]
  28. Cruze JA, Singer JT, Finnerty WR. Conditions for quantitative transformation inAcinetobacter calcoaceticus. Curr Microbiol 1979; 3:129–132 [View Article]
    [Google Scholar]
  29. Bochner BR. Global phenotypic characterization of bacteria. FEMS Microbiol Rev 2009; 33:191–205 [View Article][PubMed]
    [Google Scholar]
  30. Christensen SM, Munkres I, Vannette RL. Nectar bacteria stimulate pollen germination and bursting to enhance their fitness. bioRxiv 2021 2021
    [Google Scholar]
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