Erwiniaceae: Difference between revisions
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| familia = '''Erwiniaceae''' |
| familia = '''Erwiniaceae''' |
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| familia_authority = Adeolu et al., 2016 |
| familia_authority = Adeolu et al., 2016 |
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| subdivision_ranks=Genera |
| subdivision_ranks = Genera |
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| subdivision = |
| subdivision = ''[[Buchnera (bacterium)|Buchnera]]''<br> |
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''[[Buchnera (bacterium)|Buchnera]]''<br> |
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''[[Erwinia]]''<br> |
''[[Erwinia]]''<br> |
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''[[Mixta]]''<br> |
''[[Mixta]]''<br> |
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''[[Phaseolibacter]]''<br> |
''[[Phaseolibacter]]''<br> |
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''[[Tatumella]]''<br> |
''[[Tatumella]]''<br> |
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''[[Wigglesworthia]]'' |
''[[Wigglesworthia]]'' <br> |
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''[[Kalamiella]]'' |
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}} |
}} |
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The '''Erwiniaceae''' are a [[family (biology)|family]] of [[Gram-negative bacteria]] which includes a number of [[plant pathogens]] and insect endosymbionts |
The '''''Erwiniaceae''''' are a [[family (biology)|family]] of [[Gram-negative bacteria]] which includes a number of [[plant pathogens]] and insect endosymbionts.<ref name="Adeolu20163">{{cite journal|last1=Adeolu|first1=M|last2=Alnajar|first2=S|last3=Naushad|first3=S|last4=S Gupta|first4=R|date=December 2016|title=Genome-based phylogeny and taxonomy of the 'Enterobacteriales': proposal for Enterobacterales ord. nov. divided into the families Enterobacteriaceae, Erwiniaceae fam. nov., Pectobacteriaceae fam. nov., Yersiniaceae fam. nov., Hafniaceae fam. nov., Morganellaceae fam. nov., and Budviciaceae fam. nov.|journal=[[International Journal of Systematic and Evolutionary Microbiology]]|volume=66|issue=12|pages=5575–5599|doi=10.1099/ijsem.0.001485|pmid=27620848|doi-access=free}}</ref> This family is a member of the order [[Enterobacterales]] in the class [[Gammaproteobacteria]] of the phylum [[Proteobacteria]]. The type genus of this family is ''[[Erwinia]].''<ref name=":0">{{Cite web|title=Family: Erwiniaceae|url=https://lpsn.dsmz.de/family/erwiniaceae|access-date=2021-06-05|website=lpsn.dsmz.de|language=en}}</ref> |
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The name ''Erwiniaceae'' is derived from the Latin term ''Erwinia'', referring the type genus of the family and the suffix "-aceae", an ending used to denote a family. Together, ''Erwiniaceae'' refers to a family whose nomenclatural type is the genus ''Erwinia''.<ref name="Adeolu20163" /> |
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== Biochemical Characteristics<ref name="Adeolu20163" /> == |
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These bacteria are catalase-positive, oxidase-negative, and do not produce indole or hydrogen disulfide. Most species are positive for [[Voges–Proskauer test|Voges-Proskauer test,]] with the exception of ''Erwinia toletana, Erwinia ypographi'' and some strains of ''Erwinia oleae.'' |
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== Historical Systematics and Current Taxonomy == |
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''Erwiniaceae'', as of 2021, contains 8 validly published genera.<ref name=":0" /> Members of this family were originally members of the family ''[[Enterobacteriaceae]]'', a large phylogenetically unrelated group of species with distinct biochemical characteristics and different ecological niches. The original assignment of species into the family ''Enterobacteriaceae'' was largely based on 16S rRNA genome sequence analyses, which is known to have low discriminatory power and the results of which changes depends on the algorithm and organism information used. Despite this, the analyses still exhibited polyphyletic branching, indicating the presence of distinct subgroups within the family.<ref>{{Citation|last=Francino|first=M. Pilar|title=Phylogenetic Relationships of Bacteria with Special Reference to Endosymbionts and Enteric Species|date=2006|url=http://dx.doi.org/10.1007/0-387-30746-x_2|work=The Prokaryotes|pages=41–59|place=New York, NY|publisher=Springer New York|isbn=978-0-387-25496-8|access-date=2021-06-02|last2=Santos|first2=Scott R.|last3=Ochman|first3=Howard}}</ref> |
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In 2016, Adeolu et al. proposed the division of ''Enterobacteriaceae'' into 7 novel families based on comparative genomic analyses and the branching pattern of various phylogenetic trees constructed from conserved genome sequences, 16S rRNA sequences and multilocus sequence analyses. Molecular markers, specifically [[conserved signature indels]], specific to this family were also identified as evidence supporting the division independent of phylogenetic trees. |
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== Molecular signatures == |
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Members of this family can be reliably distinguished from all other bacteria through [[Molecular marker|molecular markers]] known as [[conserved signature indels]] (CSIs). CSIs are found in conserved regions in genes and proteins of a group of organisms and flanked on both sides by highly conserved sequences, ensuring reliable sequence alignment and their dependableness as a molecular marker.<ref name=":3">{{Cite journal|last=Naushad|first=Hafiz Sohail|last2=Lee|first2=Brian|last3=Gupta|first3=Radhey S.|date=2014-02-01|title=Conserved signature indels and signature proteins as novel tools for understanding microbial phylogeny and systematics: identification of molecular signatures that are specific for the phytopathogenic genera Dickeya, Pectobacterium and Brenneria|url=https://www.microbiologyresearch.org/content/journal/ijsem/10.1099/ijs.0.054213-0|journal=International Journal of Systematic and Evolutionary Microbiology|language=en|volume=64|issue=Pt_2|pages=366–383|doi=10.1099/ijs.0.054213-0|issn=1466-5026}}</ref> These specific insertions and deletions result from rare genetic changes in a common ancestor and are passed down vertically to descendants of the ancestor.<ref name=":3" /> CSIs can also serve as a basis for developing diagnostic methods for pathogenic species.<ref>{{Cite journal|last=Wong|first=Shirley Y.|last2=Paschos|first2=Athanasios|last3=Gupta|first3=Radhey S.|last4=Schellhorn|first4=Herb E.|date=2014-10-07|title=Insertion/deletion-based approach for the detection of Escherichia coli O157:H7 in freshwater environments|url=https://pubmed.ncbi.nlm.nih.gov/25166281/|journal=Environmental Science & Technology|volume=48|issue=19|pages=11462–11470|doi=10.1021/es502794h|issn=1520-5851|pmid=25166281}}</ref><ref>{{Cite journal|last=Ahmod|first=Nadia Z.|last2=Gupta|first2=Radhey S.|last3=Shah|first3=Haroun N.|date=2011-12-01|title=Identification of a Bacillus anthracis specific indel in the yeaC gene and development of a rapid pyrosequencing assay for distinguishing B. anthracis from the B. cereus group|url=https://pubmed.ncbi.nlm.nih.gov/21907250/|journal=Journal of Microbiological Methods|volume=87|issue=3|pages=278–285|doi=10.1016/j.mimet.2011.08.015|issn=1872-8359|pmid=21907250}}</ref> |
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12 CSIs were identified for this family in the proteins glutamate–cysteine ligase, DNA gyrase (subunit B), LPS assembly protein LptD, Thiol: disulfide interchange protein DsbA precursor, two-compo- nent sensor histidine kinase, RNA helicase, tRNA pseudour- idine(13) synthase TruD, glycine/betaine ABC transporter ATP-binding protein, superoxide dismutase, and stationary phase inducible protein CsiE.<ref name="Adeolu20163" /> These CSIs can be used to identify additional species belonging to ''Erwiniaceae'' through in-silico or other experimental methods. |
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== References == |
== References == |
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Revision as of 15:51, 5 June 2021
| Erwiniaceae | |
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| Scientific classification | |
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| Family: | Erwiniaceae Adeolu et al., 2016
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Buchnera | |
The Erwiniaceae are a family of Gram-negative bacteria which includes a number of plant pathogens and insect endosymbionts.[1] This family is a member of the order Enterobacterales in the class Gammaproteobacteria of the phylum Proteobacteria. The type genus of this family is Erwinia.[2]
The name Erwiniaceae is derived from the Latin term Erwinia, referring the type genus of the family and the suffix "-aceae", an ending used to denote a family. Together, Erwiniaceae refers to a family whose nomenclatural type is the genus Erwinia.[1]
Biochemical Characteristics[1]
These bacteria are catalase-positive, oxidase-negative, and do not produce indole or hydrogen disulfide. Most species are positive for Voges-Proskauer test, with the exception of Erwinia toletana, Erwinia ypographi and some strains of Erwinia oleae.
Historical Systematics and Current Taxonomy
Erwiniaceae, as of 2021, contains 8 validly published genera.[2] Members of this family were originally members of the family Enterobacteriaceae, a large phylogenetically unrelated group of species with distinct biochemical characteristics and different ecological niches. The original assignment of species into the family Enterobacteriaceae was largely based on 16S rRNA genome sequence analyses, which is known to have low discriminatory power and the results of which changes depends on the algorithm and organism information used. Despite this, the analyses still exhibited polyphyletic branching, indicating the presence of distinct subgroups within the family.[3]
In 2016, Adeolu et al. proposed the division of Enterobacteriaceae into 7 novel families based on comparative genomic analyses and the branching pattern of various phylogenetic trees constructed from conserved genome sequences, 16S rRNA sequences and multilocus sequence analyses. Molecular markers, specifically conserved signature indels, specific to this family were also identified as evidence supporting the division independent of phylogenetic trees.
Molecular signatures
Members of this family can be reliably distinguished from all other bacteria through molecular markers known as conserved signature indels (CSIs). CSIs are found in conserved regions in genes and proteins of a group of organisms and flanked on both sides by highly conserved sequences, ensuring reliable sequence alignment and their dependableness as a molecular marker.[4] These specific insertions and deletions result from rare genetic changes in a common ancestor and are passed down vertically to descendants of the ancestor.[4] CSIs can also serve as a basis for developing diagnostic methods for pathogenic species.[5][6]
12 CSIs were identified for this family in the proteins glutamate–cysteine ligase, DNA gyrase (subunit B), LPS assembly protein LptD, Thiol: disulfide interchange protein DsbA precursor, two-compo- nent sensor histidine kinase, RNA helicase, tRNA pseudour- idine(13) synthase TruD, glycine/betaine ABC transporter ATP-binding protein, superoxide dismutase, and stationary phase inducible protein CsiE.[1] These CSIs can be used to identify additional species belonging to Erwiniaceae through in-silico or other experimental methods.
References
- ^ a b c d Adeolu, M; Alnajar, S; Naushad, S; S Gupta, R (December 2016). "Genome-based phylogeny and taxonomy of the 'Enterobacteriales': proposal for Enterobacterales ord. nov. divided into the families Enterobacteriaceae, Erwiniaceae fam. nov., Pectobacteriaceae fam. nov., Yersiniaceae fam. nov., Hafniaceae fam. nov., Morganellaceae fam. nov., and Budviciaceae fam. nov". International Journal of Systematic and Evolutionary Microbiology. 66 (12): 5575–5599. doi:10.1099/ijsem.0.001485. PMID 27620848.
- ^ a b "Family: Erwiniaceae". lpsn.dsmz.de. Retrieved 2021-06-05.
- ^ Francino, M. Pilar; Santos, Scott R.; Ochman, Howard (2006), "Phylogenetic Relationships of Bacteria with Special Reference to Endosymbionts and Enteric Species", The Prokaryotes, New York, NY: Springer New York, pp. 41–59, ISBN 978-0-387-25496-8, retrieved 2021-06-02
- ^ a b Naushad, Hafiz Sohail; Lee, Brian; Gupta, Radhey S. (2014-02-01). "Conserved signature indels and signature proteins as novel tools for understanding microbial phylogeny and systematics: identification of molecular signatures that are specific for the phytopathogenic genera Dickeya, Pectobacterium and Brenneria". International Journal of Systematic and Evolutionary Microbiology. 64 (Pt_2): 366–383. doi:10.1099/ijs.0.054213-0. ISSN 1466-5026.
- ^ Wong, Shirley Y.; Paschos, Athanasios; Gupta, Radhey S.; Schellhorn, Herb E. (2014-10-07). "Insertion/deletion-based approach for the detection of Escherichia coli O157:H7 in freshwater environments". Environmental Science & Technology. 48 (19): 11462–11470. doi:10.1021/es502794h. ISSN 1520-5851. PMID 25166281.
- ^ Ahmod, Nadia Z.; Gupta, Radhey S.; Shah, Haroun N. (2011-12-01). "Identification of a Bacillus anthracis specific indel in the yeaC gene and development of a rapid pyrosequencing assay for distinguishing B. anthracis from the B. cereus group". Journal of Microbiological Methods. 87 (3): 278–285. doi:10.1016/j.mimet.2011.08.015. ISSN 1872-8359. PMID 21907250.
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