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CAB eBooks

Ebooks on agriculture and the applied life sciences from CAB International

CABI Book Chapter

Trends in the systematics of bacteria and fungi.

Book cover for Trends in the systematics of bacteria and fungi.


There are fundamental differences between the current levels of genomic and proteomic knowledge for bacteria and fungi. With multiple growth forms and over 100,000 known species, the fungi probably present a more complex situation, but genomic studies are hindered by the lack of reliable reference data for many species. As activities such as environmental sampling, and genomic and proteomic profil...


Chapter 13 (Page no: 217)

Identification and Classification of Prokaryotes using whole-genome sequences.

This book chapter attempts to summarize the major findings from genome-based taxonomic studies in the past two decades, and briefly describe the major genome-based approaches currently available for species identification and classification with special focus on the 'uncultivated majority' and associated limitations, as well as outlines future directions towards a truly genome-based taxonomy for prokaryotes that will equally encompass cultured and uncultivated taxa. Importantly, the need for a system to catalogue uncultivated taxa is very urgent, because the genomes and ecological/functional data that are becoming available are already overwhelming, and alphanumeric identifiers and synonyms are creating confusion of Babylonian dimensions.

Other chapters from this book

Chapter: 1 (Page no: 1) Bridging 200 years of bacterial classification. Author(s): Rosselló-Móra, R. Stackebrandt, E.
Chapter: 2 (Page no: 21) Identification of fungi: background, challenges and prospects. Author(s): May, T. W.
Chapter: 3 (Page no: 30) Names of microorganisms and data resources to retrieve information about published names. Author(s): Oren, A. Parte, A. C. Cooper, J.
Chapter: 4 (Page no: 55) Preserving the reference strains. Author(s): Smith, D. Bussas, V.
Chapter: 5 (Page no: 69) Can older fungal sequence data be useful? Author(s): Bridge, P.
Chapter: 6 (Page no: 83) Data resources: role and services of culture collections. Author(s): Ryan, M. J. Verkleij, G. Robert, V.
Chapter: 7 (Page no: 93) MALDI-TOF MS and currently related proteomic technologies in reconciling bacterial systematics. Author(s): Shah, H. N. Shah, A. J. Belgacem, O. Ward, M. Dekio, I. Lyna Selami Duncan, L. Bruce, K. Xu Zhen Mkrtchyan, H. V. Cave, R. Shah, L. M. N. Gharbia, S. E.
Chapter: 8 (Page no: 119) MALDI-TOF MS and its requirements for fungal identification. Author(s): Santos, C. Galeano, P. Lima Neto, R. Evangelista Oliveira, M. M. Lima, N.
Chapter: 9 (Page no: 141) The Strength of Chemotaxonomy. Author(s): Patel, N. B. Lawson, P. A.
Chapter: 10 (Page no: 168) Microbial Genomic Taxonomy. Author(s): Thompson, C. C. Vidal, L. Salazar, V. Swings, J. Thompson, F. L.
Chapter: 11 (Page no: 179) Navigating bacterial taxonomy in a world of unchartered microbial organisms. Author(s): Kale, V. Richardson, L. Finn, R. D.
Chapter: 12 (Page no: 198) Sequence-based identification and classification of fungi. Author(s): Borman, A. M. Johnson, E. M.
Chapter: 14 (Page no: 231) Genomic sequences for fungi. Author(s): Baroncelli, R. Cafà, G.
Chapter: 15 (Page no: 255) What can genome analysis offer for bacteria? Author(s): Göker, M.
Chapter: 16 (Page no: 282) Genomes reveal the cohesiveness of bacterial species taxa and provide a path towards describing all of bacterial diversity. Author(s): Cohan, F. M.
Chapter: 17 (Page no: 301) Are species concepts outdated for fungi? Intraspecific variation in plant-pathogenic fungi illustrates the need for subspecific categorization. Author(s): Monte, E. Hermosa, R. Jiménez-Gasco, M. del M. Jiménez-Díaz, R. M.
Chapter: 18 (Page no: 320) Where to now? Author(s): Bridge, P. Stackebrandt, E. Smith, D.

Chapter details

  • Author Affiliation
  • School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, Georgia, USA.
  • Year of Publication
  • 2021
  • ISBN
  • 9781789244984
  • Record Number
  • 20203564824