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2016;11 (7): e0159338.

Comparative Transcriptome Analysis of Resistant and Susceptible Common Bean Genotypes in Response to Soybean Cyst Nematode Infection.

Shalu Jain, Kishore Chittem, Robert Brueggeman, Juan M Osorno, Jonathan Richards, Berlin D Nelson
Author Information
  1. Shalu Jain: Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, 58108, United States of America.
  2. Kishore Chittem: Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, 58108, United States of America.
  3. Robert Brueggeman: Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, 58108, United States of America.
  4. Juan M Osorno: Department of Plant Sciences, North Dakota State University, Fargo, North Dakota, 58108, United States of America.
  5. Jonathan Richards: Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, 58108, United States of America.
  6. Berlin D Nelson: Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, 58108, United States of America.
PMID: 27441552 DOI: 10.1371/journal.pone.0159338

Abstract

Soybean cyst nematode (SCN; Heterodera glycines Ichinohe) reproduces on the roots of common bean (Phaseolus vulgaris L.) and can cause reductions in plant growth and seed yield. The molecular changes in common bean roots caused by SCN infection are unknown. Identification of genetic factors associated with SCN resistance could help in development of improved bean varieties with high SCN resistance. Gene expression profiling was conducted on common bean roots infected by SCN HG type 0 using next generation RNA sequencing technology. Two pinto bean genotypes, PI533561 and GTS-900, resistant and susceptible to SCN infection, respectively, were used as RNA sources eight days post inoculation. Total reads generated ranged between ~ 3.2 and 5.7 million per library and were mapped to the common bean reference genome. Approximately 70-90% of filtered RNA-seq reads uniquely mapped to the reference genome. In the inoculated roots of resistant genotype PI533561, a total of 353 genes were differentially expressed with 154 up-regulated genes and 199 down-regulated genes when compared to the transcriptome of non- inoculated roots. On the other hand, 990 genes were differentially expressed in SCN-inoculated roots of susceptible genotype GTS-900 with 406 up-regulated and 584 down-regulated genes when compared to non-inoculated roots. Genes encoding nucleotide-binding site leucine-rich repeat resistance (NLR) proteins, WRKY transcription factors, pathogenesis-related (PR) proteins and heat shock proteins involved in diverse biological processes were differentially expressed in both resistant and susceptible genotypes. Overall, suppression of the photosystem was observed in both the responses. Furthermore, RNA-seq results were validated through quantitative real time PCR. This is the first report describing genes/transcripts involved in SCN-common bean interaction and the results will have important implications for further characterization of SCN resistance genes in common bean.

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MeSH Term

Animals
Disease Resistance
Gene Expression Profiling
Gene Expression Regulation, Plant
Genome, Plant
Genotype
Nematode Infections
Phaseolus
Plant Diseases
Real-Time Polymerase Chain Reaction
Reproducibility of Results
Sequence Analysis, RNA
Glycine max
Transcription Factors
Transcriptome
Tylenchoidea

Chemicals

Transcription Factors
Comparative Study Journal Article
Article has an altmetric score of 3

Word Cloud

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