Specimen Details

ICMP 17027 – Phytophthora agathidicida B.S. Weir, Beever, Pennycook & Bellgard

Data provider:

International Collection Of Microorganisms

Barcode:

ICMP 17027

Type status:

ex Holotype

Culture type:

Chromist Culture

Loan status:

Active

Database record added:

12 April 2007

Database record updated:

17 September 2024

Components

Primary component

Active identification

Determined name:

Phytophthora agathidicida B.S. Weir, Beever, Pennycook & Bellgard

Determiner:

Weir et al.

Identification date:

2014 (Verbatim: 2014)

Preferred name:

Phytophthora agathidicida B.S. Weir, Beever, Pennycook & Bellgard

Division:

Oomycota

Class:

Oomycetes

Order:

Peronosporales

Family:

Peronosporaceae

Identification type:

Determination

Associations:

isolated from Agathis australis

Other identifications

Identification

Determined name:

Phytophthora de Bary

Determiner:

Identification date:

Preferred name:

Phytophthora de Bary

Active:

Identification type:

Determination

Identification

Determined name:

Phytophthora sp.

Determiner:

Identification date:

Preferred name:

Phytophthora de Bary

Active:

Identification type:

Received as

Identification

Determined name:

Phytophthora sp. "taxon Agathis"

Determiner:

B.S. Weir

Identification date:

2012-10-01 (Verbatim: 1 October 2012)

Preferred name:

Phytophthora agathidicida B.S. Weir, Beever, Pennycook & Bellgard

Active:

Identification type:

Determination

Other components

Active identification

Determined name:

Agathis australis

Determiner:

Identification date:

Preferred name:

Agathis australis (D.Don) Lindl.

Division:

Tracheophyta

Class:

Pinopsida

Order:

Pinales

Family:

Araucariaceae

Identification type:

Determination

Part affected:

Trunk bleeding lesion

Present:

Collection events

Primary collection event

Collection event type:

Field

Standard locality

Location:

"Gadgil site", Compartment 47, State Forest 165, Great Barrier Island

Georeferences:

Latitude and Longitude (WGS84): -36.225347 175.417921

Verbatim locality:

"Gadgil site", Compartment 47, State Forest 165, Great Barrier Island

Verbatim collector:

R.E. Beever

Standardised collector:

Ross E. Beever

Collectors reference no.:

Verbatim date:

23 Mar 2006

Start date:

2006-03-23

Country:

New Zealand

New Zealand Area Codes:

Coromandel

Wellington

Native lands:

Ngāi Tai ki Tāmaki

Ngāti Manuhiri

Ngāti Maru (Hauraki)

Ngāti Rehua

Ngāti Tamaterā

Ngāti Whanaunga

Ngātiwai

Georeferences:

Latitude and Longitude (WGS84): -36.225347 175.417921

Culture flags

Price Category:

Category 1

MPI:

Restricted Culture

MPI:

Unwanted Organism

Culture notes

Characterised as:

Tag name Phytophthora taxon Agathis - sequenced equivalent to ICMP 16471 (Park)

Growth Conditions:

PDA or CMA 20 C for 7 days

Other Details:

Ngāti Rehua has cultural authority for this isolate

External links

CIS - PDD:

PDD 91595

GenBank:

LGTS00000000 - genomic DNA

Note: draft genome sequence

KP295308 - genomic DNA

PRJNA290659 - Phytophthora agathidicida isolate:NZFS 3770 Genome sequencing and assembly

Note: draft genome

BK011977 - rpl14, rpl5, nad11, nad1, nad4L, nad6, nad5, atp1, nad4, ymf98, nad7, nad2, rps10, rps12, rps7, cox3, atp6, nad3, cob, nad9, atp9, cox1, cox2, secY, ymf101, rps11, rps13, rpl2, rps19, rps3, rpl16, ymf99, atp8, rps14, rps8, rpl6, rps2, rps4, ymf100

Note: draft mitochondrial genome

PRJNA734652 - Phytophthora agathidicida isolate:ASM14973 high quality genome

Note: full genome as NZFS 3770

CP106980 - genomic DNA

Note: Chromosome 10

CP106979 - genomic DNA

Note: Chromosome 9

CP106978 - genomic DNA

Note: Chromosome 8

CP106977 - genomic DNA

Note: Chromosome 7

CP106976 - genomic DNA

Note: Chromosome 6

CP106975 - genomic DNA

Note: Chromosome 5

CP106974 - genomic DNA

Note: Chromosome 4

CP106973 - genomic DNA

Note: Chromosome 3

CP106972 - genomic DNA

Note: Chromosome 2

CP106971 - genomic DNA

Note: Chromosome 1

CP106981 - genomic DNA

Note: mitochondrion, complete genome

Literature:

Studholme, D.J.; McDougal, R.L.; Sambles, C.; Hansen, E.; Hardy, G.; Grant, M.; Ganley, R.J.; Williams, N.M. (2016)Genome sequences of six Phytophthora species associated with forests in New Zealand.Genomics Data754-56. DOI: 10.1016/j.gdata.2015.11.015

Weir, Bevan Simon; PADERES, ELSA P.; ANAND, NITISH; UCHIDA, JANICE Y.; PENNYCOOK, SHAUN R.; BELLGARD, STANLEY E.; BEEVER, ROSS E. (2015)A taxonomic revision of Phytophthora Clade 5 including two new species, Phytophthora agathidicida and P. cocois.Phytotaxa205(1)21-. DOI: 10.11646/phytotaxa.205.1.2

Winkworth, Richard C.; Bellgard, Stanley E.; McLenachan, Patricia A.; Lockhart, Peter J. (2021)The mitogenome of Phytophthora agathidicida: Evidence for a not so recent arrival of the “kauri killing” Phytophthora in New Zealand.PLOS ONE16(5)e0250422-. DOI: 10.1371/journal.pone.0250422

Guo, Yanan; Dupont, Pierre‐Yves; Mesarich, Carl H.; Yang, Bo; McDougal, Rebecca L.; Panda, Preeti; Dijkwel, Paul; Studholme, David J.; Sambles, Christine; Win, Joe; Wang, Yuanchao; Williams, Nari M.; Bradshaw, Rosie E. (2020)Functional analysis of RXLR effectors from the New Zealand kauri dieback pathogen Phytophthora agathidicida.Molecular Plant Pathology21(9)1131-1148. DOI: 10.1111/mpp.12967

Cox, Murray P.; Guo, Yanan; Winter, David J.; Sen, Diya; Cauldron, Nicholas C.; Shiller, Jason; Bradley, Ellie L.; Ganley, Austen R.; Gerth, Monica L.; Lacey, Randy F.; McDougal, Rebecca L.; Panda, Preeti; Williams, Nari M.; Grunwald, Niklaus J.; Mesarich, Carl H.; Bradshaw, Rosie E. (2022)Chromosome-level assembly of the Phytophthora agathidicida genome reveals adaptation in effector gene families.Frontiers in Microbiology13. DOI: 10.3389/fmicb.2022.1038444

Note: Full genome assembly as NZFS 3770

10.5281/zenodo.7996430

Note: Genome annotation file

Culture events

Isolated:

Actioned by:

Ross E. Beever

Date:

01 March 2006 (Verbatim: 01 Mar 2006)

Deposited:

Actioned by:

Ross E. Beever (Reference number 316-14 (K2))

Date:

12 April 2007 (Verbatim: 12 Apr 2007)

Duplicates

Scion: NZFS 3770

Direction:

Sent

Hutton Phytophthora Collection Dundee: SCRP1339

Permissions

Project permits

Project title:

Local Contexts - ICMP Culture Collection

Reference:

ICMP Collection - Local Contexts

Biocultural (BC) Notice