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Uncovering the Differential Molecular Basis of Adaptive Diversity in Three Echinochloa Leaf Transcriptomes

Author

Listed:
  • Gyoungju Nah
  • Ji-Hoon Im
  • Jin-Won Kim
  • Hae-Rim Park
  • Min-Jung Yook
  • Tae-Jin Yang
  • Albert J Fischer
  • Do-Soon Kim

Abstract

Echinochloa is a major weed that grows almost everywhere in farmed land. This high prevalence results from its high adaptability to various water conditions, including upland and paddy fields, and its ability to grow in a wide range of climates, ranging from tropical to temperate regions. Three Echinochloa crus-galli accessions (EC-SNU1, EC-SNU2, and EC-SNU3) collected in Korea have shown diversity in their responses to flooding, with EC-SNU1 exhibiting the greatest growth among three accessions. In the search for molecular components underlying adaptive diversity among the three Echinochloa crus-galli accessions, we performed de novo assembly of leaf transcriptomes and investigated the pattern of differentially expressed genes (DEGs). Although the overall composition of the three leaf transcriptomes was well-conserved, the gene expression patterns of particular gene ontology (GO) categories were notably different among the three accessions. Under non-submergence growing conditions, five protein categories (serine/threonine kinase, leucine-rich repeat kinase, signaling-related, glycoprotein, and glycosidase) were significantly (FDR, q

Suggested Citation

  • Gyoungju Nah & Ji-Hoon Im & Jin-Won Kim & Hae-Rim Park & Min-Jung Yook & Tae-Jin Yang & Albert J Fischer & Do-Soon Kim, 2015. "Uncovering the Differential Molecular Basis of Adaptive Diversity in Three Echinochloa Leaf Transcriptomes," PLOS ONE, Public Library of Science, vol. 10(8), pages 1-20, August.
    • Handle: RePEc:plo:pone00:0134419
    DOI: 10.1371/journal.pone.0134419
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    1. Rico Gamuyao & Joong Hyoun Chin & Juan Pariasca-Tanaka & Paolo Pesaresi & Sheryl Catausan & Cheryl Dalid & Inez Slamet-Loedin & Evelyn Mae Tecson-Mendoza & Matthias Wissuwa & Sigrid Heuer, 2012. "The protein kinase Pstol1 from traditional rice confers tolerance of phosphorus deficiency," Nature, Nature, vol. 488(7412), pages 535-539, August.
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