Home LiteratureArticle Details

PMID: 16455274 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

A cDNA-AFLP based strategy to identify transcripts associated with avirulence in Phytophthora infestans.

Fungal genetics and biology : FG & B ·Vol. 43 ·No. 2 ·2006-02-00 ·Pages 111-23

Guo J, Jiang RH, Kamphuis LG, Govers F

Abstract

Expression profiling using cDNA-AFLP is commonly used to display the transcriptome of a specific tissue or developmental stage. Here, cDNA-AFLP was used to identify transcripts in a segregating F1 population of Phytophthora infestans, the oomycete pathogen that causes late blight. To find transcripts derived from putative avirulence (Avr) genes germinated cyst cDNA from F1 progeny with defined avirulence phenotypes was pooled and used in a bulked segregant analysis (BSA). Over 30,000 transcript derived fragments (TDFs) were screened resulting in 99 Avr-associated TDFs as well as TDFs with opposite pattern. With 142 TDF sequences homology searches and database mining was carried out. cDNA-AFLP analysis on individual F1 progeny revealed 100% co-segregation of four TDFs with particular AVR phenotypes and this was confirmed by RT-PCR. Two match the same P. infestans EST with unknown sequence and this is a likely candidate for Avr4. The other two are associated with the Avr3b-Avr10-Avr11 locus. This combined cDNA-AFLP/BSA strategy is an efficient approach to identify Avr-associated transcriptome markers that can complement positional cloning.

MeSH Terms

Chromosome Mapping Computational Biology/methods Crosses, Genetic DNA, Complementary/genetics,metabolism DNA, Fungal/genetics Fungal Proteins/genetics,metabolism Gene Expression Profiling Genetic Markers Molecular Sequence Data Phenotype Phytophthora/genetics,growth & development,metabolism,pathogenicity Polymorphism, Restriction Fragment Length RNA, Fungal/genetics,metabolism Reverse Transcriptase Polymerase Chain Reaction Sequence Analysis, DNA Transcription, Genetic Virulence

Chemicals

DNA, Complementary DNA, Fungal Fungal Proteins Genetic Markers RNA, Fungal

Authors & Affiliations

4 authors, click to expand affiliations / ORCID

Guo Jun

Plant Sciences Group, Laboratory of Phytopathology, Wageningen University, Binnenhaven 5, NL-6709 PD Wageningen, The Netherlands.

Jiang Rays H Y

Kamphuis Lars G

Govers Francine

Article Info

Journal

Fungal genetics and biology : FG & B

Abbr.

Fungal Genet Biol

ISSN

1087-1845

DOI

10.1016/j.fgb.2005.11.001

Published

2006-02-00

Epub

2006-00-07

Pages

111-23

Language

English

Region

United States

NLM ID

9607601

Subset

Databases

GENBANK

DW010060, DW010061, DW010062, DW010063, DW010064, DW010065, DW010066, DW010067, DW010068, DW010069, DW010070, DW010071, DW010072, DW010073, DW010074, DW010075, DW010076, DW010077, DW010078, DW010079, DW010080, DW010081, DW010082, DW010083, DW010084, DW010085, DW010086, DW010087, DW010088, DW010089, DW010090, DW010091, DW010092, DW010093, DW010094, DW010095, DW010096, DW010097, DW010098, DW010099, DW010100, DW010101, DW010102, DW010103, DW010104, DW010105, DW010106, DW010107, DW010108, DW010109, DW010110, DW010111, DW010112, DW010113, DW010114, DW010115, DW010116, DW010117, DW010118, DW010119, DW010120, DW010121, DW010122, DW010123, DW010124, DW010125, DW010126, DW010127, DW010128, DW010129, DW010130, DW010131, DW010132, DW010133, DW010134, DW010135, DW010136, DW010137, DW010138, DW010139, DW010140, DW010141, DW010142, DW010143, DW010144, DW010145, DW010146, DW010147, DW010148, DW010149, DW010150, DW010151, DW010152, DW010153, DW010154, DW010155, DW010156, DW010157, DW010158, DW010159, DW010160, DW010161, DW010162, DW010163, DW010164, DW010165, DW010166, DW010167, DW010168, DW010169, DW010170, DW010171, DW010172, DW010173, DW010174, DW010175, DW010176, DW010177, DW010178, DW010179, DW010180, DW010181, DW010182, DW010183, DW010184, DW010185, DW010186, DW010187, DW010188, DW010189, DW010190, DW010191, DW010192, DW010193, DW010194, DW010195, DW010196, DW010197, DW010198

External Links

PubMed source DOI: 10.1016/j.fgb.2005.11.001 View journal details

Analysis Services

A cDNA-AFLP based strategy to identify transcripts associated with avirulence in Phytophthora infestans.

Contact

WeChat Official Account