Systematics Collections Data

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:
22 February 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:
no
Identification type:
Determination
Identification
Determined name:
Phytophthora sp.
Determiner:
Identification date:
Preferred name:
Phytophthora de Bary
Active:
no
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:
no
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:
no
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.:
K2
Verbatim date:
23 Mar 2006
Start date:
2006-03-23
Country:
New Zealand
New Zealand Area Codes:
Coromandel
Native lands:
Ngāi Tai ki Tāmaki
Ngāti Hako
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

KP295363 - RPL10

KP295429 - YPT1

KP295334 - ND1

KP295276 - HSP90

KP295222 - COX1

KP295392 - TIGA

KP295255 - ENL

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

LC596100 - tigA

LC595965 - cox2

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

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
Permissions
Project permits
Project title:
Local Contexts - ICMP Culture Collection
Reference:
ICMP Collection - Local Contexts
Biocultural (BC) Notice