Specimen Details

ICMP 7383 – Xanthomonas hortorum pv. gardneri (ex Sutic 1957) Morinière et al.

Data provider:

International Collection Of Microorganisms

Barcode:

ICMP 7383

Culture type:

Bacterial Culture

Loan status:

Active

Database record added:

25 January 2002

Database record updated:

16 April 2024

Components

Primary component

Active identification

Determined name:

Xanthomonas hortorum pv. gardneri (ex Sutic 1957) Morinière et al.

Determiner:

B.S. Weir

Identification date:

2024 (Verbatim: 16 Apil 2024)

Preferred name:

Xanthomonas hortorum pv. gardneri (ex Sutic 1957) Morinière et al.

Division:

Pseudomonadota

Class:

Gammaproteobacteria

Order:

Lysobacterales

Family:

Lysobacteraceae

Identification type:

Determination

Note:

multigene data

Associations:

isolated from Lycopersicon esculentum Mill.

Other identifications

Identification

Determined name:

Xanthomonas euvesicatoria Jones et al. 2006

Determiner:

J.M. Young

Identification date:

2007-01-03 (Verbatim: 3 Jan 2007)

Preferred name:

Xanthomonas euvesicatoria Jones et al.

Active:

Identification type:

Determination

Identification

Determined name:

Xanthomonas campestris pv. vesicatoria

Determiner:

J.M. Young

Identification date:

1981 (Verbatim: 1981)

Preferred name:

Xanthomonas vesicatoria (ex Doidge 1920) Vauterin et al.

Active:

Identification type:

Received as

Identification

Determined name:

Xanthomonas gardneri (ex Šutić 1957) Jones et al. 2006

Determiner:

O. Pruvost

Identification date:

2010 (Verbatim: 2010)

Preferred name:

Xanthomonas hortorum pv. gardneri (ex Sutic 1957) Morinière et al.

Active:

Identification type:

Determination

Other components

Active identification

Determined name:

Lycopersicon esculentum Mill.

Determiner:

Identification date:

Preferred name:

Solanum lycopersicum L.

Division:

Tracheophyta

Class:

Magnoliopsida

Order:

Solanales

Family:

Solanaceae

Vernacular name:

tomato

Identification type:

Determination

Part affected:

leaf spot

Present:

Collection events

Primary collection event

Collection event type:

Field

Standard locality

Location:

Gisborne

Georeferences:

Latitude and Longitude (WGS84): -38.6625 178.017778

Verbatim locality:

Gisborne

Verbatim collector:

D.R.W. Watson

Standardised collector:

Denis R. W. Watson

Verbatim date:

Dec 1980

Start date:

1980-12

Country:

New Zealand

New Zealand Area Codes:

Gisborne

Culture flags

Price Category:

Category 1

Culture notes

Other Details:

associated with P. syringae pv. tomato, Copper resistant

Pathogenic to:

tomato (Watson) ; tomato cv.Marmalade (Pruvost) and Peppers cvs. Yolo and Maurice (Pruvost)

External links

GenBank:

NZ_CP018731 - genomic DNA

NZ_CP018733 - AbrB/MazE/SpoVT family DNA-binding domain-containing protein, acyltransferase, avirulence protein, Avirulence protein AvrBs3, baseplate assembly protein, conjugative relaxase, DNA-binding protein, DUF2688 domain-containing protein, DUF87 domain-containing protein, DUF945 domain-containing protein, hypothetical protein, invertase, IS256 family transposase, IS3 family transposase, IS30 family transposase, IS5 family transposase, IS5/IS1182 family transposase, NYN domain-containing protein, pectate lyase, phage tail protein, phage virion morphogenesis protein, PIN domain-containing protein, recombinase family protein, replication protein, resolvase, restriction endonuclease, restriction endonuclease subunit M, sulfate permease, TldD protein, transcriptional regulator, transposase, type II toxin-antitoxin system RelE/ParE family toxin, type III secretion protein

PRJNA224116 - Refseq Prokaryotic Genome Annotation Project

NZ_CP018734 - AbrB/MazE/SpoVT family DNA-binding domain-containing protein, ATPase, avirulence protein, conjugal transfer protein, conjugal transfer protein TraG, conjugal transfer protein TrbC, DNA topoisomerase III, DNA-binding protein, DUF2840 domain-containing protein, DUF3363 domain-containing protein, hypothetical protein, IS3 family transposase, plasmid pRiA4b ORF-3 family protein, P-type conjugative transfer protein TrbG, P-type conjugative transfer protein TrbL, recombinase family protein, signal peptidase I, transglycosylase, TrbI/VirB10 family protein, type II toxin-antitoxin system RelE/ParE family toxin, type II/IV secretion system family protein, type IV secretion system protein VirB4, type IV secretory pathway, TrbF protein, XRE family transcriptional regulator

GU322781 - atpD

GU322611 - efp

CP018734 - ATPase, avirulence protein, conjugal transfer protein, conjugal transfer protein TraG, conjugal transfer protein TrbC, conjugal transfer protein TrbF, conjugal transfer protein TrbI, DNA topoisomerase III, hypothetical protein, invertase, KfrA protein, P-type conjugative transfer protein TrbG, P-type conjugative transfer protein TrbL, signal peptidase I, transcriptional regulator, transglycosylase, transposase, type II/IV secretion system family protein, type IV secretion system protein VirB4, VapC toxin family PIN domain ribonuclease

CP018733 - acetyltransferase, acyltransferase, avirulence protein, Avirulence protein AvrBs3, baseplate assembly protein, conjugal transfer protein TraJ, hypothetical protein, invertase, IS256 family transposase, IS30 family transposase, IS5 family transposase, KrfA, pectate lyase, phage tail protein, phage virion morphogenesis protein, plasmid stabilization protein, relaxase, replication protein, resolvase, restriction endonuclease, restriction endonuclease subunit M, sulfate permease, TldD protein, transcriptional regulator, transposase, VapC toxin family PIN domain ribonuclease, zinc chelation protein SecC

CP018732 - arsenate reductase (glutaredoxin), arsenical efflux pump membrane protein ArsB, arsenical resistance protein ArsH, ArsR family transcriptional regulator, ATP-dependent DNA helicase DinG, ATP-dependent endonuclease, cation transporter, cobalt ABC transporter substrate-binding protein, copper amine oxidase, copper oxidase, copper resistance protein, copper resistance protein CopB, copper-translocating P-type ATPase, cytochrome c family protein, DDE transposase, DNA polymerase V subunit UmuC, DUF305 domain-containing protein, DUF4440 domain-containing protein, efflux transporter periplasmic adaptor subunit, ferredoxin, formimidoylglutamase, histidine kinase, hypothetical protein, integrase, MerR family transcriptional regulator, peptidase S24, phosphoadenosine phosphosulfate reductase, PtxR, single-stranded DNA-binding protein, TonB-dependent receptor, transcriptional regulator, transporter, transposase, tRNA-Ile, type IV conjugative transfer system protein TraL, type-IV secretion system protein TraC

CP018731 - lldD, rrf, tatA, actP, glyA, rnpB, nusG, ffs, fabG, dnaE2, obgE, asnB, emrB, rimO, nusA, potG, aroK, ugpC, sirA, flgD, fliA, motC, hflB, aspA, ssrA, gpmA, fadE, relA, ssuB, ssrS, hppA, treA, trpC

PP691119 - 16S ribosomal RNA

PP681445 - rpoD

PP681454 - dnaK

PP681463 - gyrB

Literature:

Hamza, A.A.; Robene-Soustrade, I.; Jouen, E.; Lefeuvre, P.; Chiroleu, F.; Fisher-Le Saux, M.; Gagnevin, L.; Pruvost, O. (2012)MultiLocus Sequence Analysis- and Amplified Fragment Length Polymorphism-based characterization of xanthomonads associated with bacterial spot of tomato and pepper and their relatedness to Xanthomonas species.Systematic and Applied Microbiology35(3)183-190. DOI: 10.1016/j.syapm.2011.12.005

Richard, D.; Ravigné, V.; Rieux, A.; Facon, B.; Boyer, C.; Boyer, K.; Grygiel, P.; Javegny, S.; Terville, M.; Canteros, B. I.; Robène, I.; Vernière, C.; Chabirand, A.; Pruvost, O.; Lefeuvre, P. (2017)Adaptation of genetically monomorphic bacteria: evolution of copper resistance through multiple horizontal gene transfers of complex and versatile mobile genetic elements.Molecular Ecology26(7)2131-2149. DOI: 10.1111/mec.14007

Hamza, A. A.; Robène-Soustrade, I.; Jouen, E.; Gagnevin, L.; Lefeuvre, P.; Chiroleu, F.; Pruvost, O. (2010)Genetic and Pathological Diversity Among Xanthomonas Strains Responsible for Bacterial Spot on Tomato and Pepper in the Southwest Indian Ocean Region.Plant Disease94(8)993-999. DOI: 10.1094/PDIS-94-8-0993

Bansal, Kanika; Kumar, Sanjeet; Kaur, Amandeep; Sharma, Shikha; Patil, Prashant; Patil, Prabhu B. (2020)Deep phylo-taxono-genomics (DEEPT genomics) reveals misclassification ofXanthomonasspecies complexes intoXylella, StenotrophomonasandPseudoxanthomonas. DOI: 10.1101/2020.02.04.933507

Morinière, Lucas; Burlet, Alexandre; Rosenthal, Emma R.; Nesme, Xavier; Portier, Perrine; Bull, Carolee T.; Lavire, Céline; Fischer-Le Saux, Marion; Bertolla, Franck (2020)Clarifying the taxonomy of the causal agent of bacterial leaf spot of lettuce through a polyphasic approach reveals that Xanthomonas cynarae Trébaol et al. 2000 emend. Timilsina et al. 2019 is a later heterotypic synonym of Xanthomonas hortorum Vauterin et al. 1995.Systematic and Applied Microbiology43(4)126087-. DOI: 10.1016/j.syapm.2020.126087

Bansal, Kanika; Kumar, Sanjeet; Kaur, Amandeep; Singh, Anu; Patil, Prabhu B. (2021)Deep phylo-taxono genomics reveals Xylella as a variant lineage of plant associated Xanthomonas and supports their taxonomic reunification along with Stenotrophomonas and Pseudoxanthomonas.Genomics113(6)3989-4003. DOI: 10.1016/j.ygeno.2021.09.021

Culture events

Isolated:

Actioned by:

Denis R. W. Watson

Date:

01 December 1980 (Verbatim: Dec 1980)

Deposited:

Note:

Derived from earliest batch date

Actioned by:

Denis R. W. Watson (Reference number F2847)

Date:

01 July 1981 (Verbatim: 01 Jul 1981)

Duplicates

French Collection for Plant-associated Bacteria: CFBP 7999

Assigned reference numbers

PDDCC:

PDDCC 7383

Permissions

Project permits

Project title:

Local Contexts - ICMP Culture Collection

Reference:

ICMP Collection - Local Contexts

Biocultural (BC) Notice