TY - JOUR
T1 - Expressed sequence tag analysis of the soybean rust pathogen Phakopsora pachyrhizi
AU - Posada-Buitrago, Martha Lucia
AU - Frederick, Reid D.
N1 - Funding Information:
In this study, approximately 39% of the unique ESTs appeared to be related to previously characterized genes. This highlights the scarcity of genomic information available from pathogenic fungi. The EST projects have been shown to be a valid and fast way to gain information on components that regulate vital processes in pathogenic fungi and the interaction with their hosts. In 2002, a Phakopsora genome sequencing project, funded by the U.S. Department of Agriculture-Agricultural Research Service and the Department of Energy (DOE), was initiated at the DOE-Joint Genome Institute to generate draft quality sequence of P. pachyrhizi and P. meibomiae. The ESTs identified in this study, along with the analyses of the cDNA libraries from P. pachyrhizi infected soybeans, will aid in the annotation of genes from the Phakopsora genome project. These data will facilitate our understanding of the biology and the evolution of obligate fungal pathogens and will also advance our efforts to develop effective means for soybean rust control.
Funding Information:
We thank Connie Briggs at the USDA-ARS-ERRC-NAF for sequencing the EST clones. We are grateful to Drs. Seogchan Kang, William Schneider, Morris Bonde, Paul Tooley, and Douglas Luster for critical review of the manuscript. This work was supported by USDA-ARS CRIS Projects 1920-22000-23-00D and 1920-22000-27-00D. M.L.P.B. was supported by an USDA-ARS Administrator’s Postdoctoral Fellowship.
PY - 2005/12
Y1 - 2005/12
N2 - Soybean rust is caused by the obligate fungal pathogen Phakopsora pachyrhizi Sydow. A unidirectional cDNA library was constructed using mRNA isolated from germinating P. pachyrhizi urediniospores to identify genes expressed at this physiological stage. Single pass sequence analysis of 908 clones revealed 488 unique expressed sequence tags (ESTs, unigenes) of which 107 appeared as multiple copies. BLASTX analysis identified 189 unigenes with significant similarities (Evalue < 10-5) to sequences deposited in the NCBI non-redundant protein database. A search against the NCBI dbEST using the BLASTN algorithm revealed 32 ESTs with high or moderate similarities to plant and fungal sequences. Using the Expressed Gene Anatomy Classification, 31.7% of these ESTs were involved in primary metabolism, 14.3% in gene/protein expression, 7.4% in cell structure and growth, 6.9% in cell division, 4.8% in cell signaling/cell communication, and 4.8% in cell/organism defense. Approximately 29.6% of the identities were to hypothetical proteins and proteins with unknown function.
AB - Soybean rust is caused by the obligate fungal pathogen Phakopsora pachyrhizi Sydow. A unidirectional cDNA library was constructed using mRNA isolated from germinating P. pachyrhizi urediniospores to identify genes expressed at this physiological stage. Single pass sequence analysis of 908 clones revealed 488 unique expressed sequence tags (ESTs, unigenes) of which 107 appeared as multiple copies. BLASTX analysis identified 189 unigenes with significant similarities (Evalue < 10-5) to sequences deposited in the NCBI non-redundant protein database. A search against the NCBI dbEST using the BLASTN algorithm revealed 32 ESTs with high or moderate similarities to plant and fungal sequences. Using the Expressed Gene Anatomy Classification, 31.7% of these ESTs were involved in primary metabolism, 14.3% in gene/protein expression, 7.4% in cell structure and growth, 6.9% in cell division, 4.8% in cell signaling/cell communication, and 4.8% in cell/organism defense. Approximately 29.6% of the identities were to hypothetical proteins and proteins with unknown function.
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U2 - 10.1016/j.fgb.2005.06.004
DO - 10.1016/j.fgb.2005.06.004
M3 - Article
C2 - 16291502
AN - SCOPUS:27844463518
SN - 1087-1845
VL - 42
SP - 949
EP - 962
JO - Fungal Genetics and Biology
JF - Fungal Genetics and Biology
IS - 12
ER -