OpenLB
Open Library of Bioscience
Advanced Search
Scientific data
07 24, 2019;6 (1): 133.

Transcriptome profiling of interaction effects of soybean cyst nematodes and soybean aphids on soybean.

Surendra Neupane, Febina M Mathew, Adam J Varenhorst, Madhav P Nepal
Author Information
  1. Surendra Neupane: Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA. ORCID
  2. Febina M Mathew: Department of Agronomy, Horticulture and Plant Science, South Dakota State University, Brookings, SD, 57007, USA.
  3. Adam J Varenhorst: Department of Agronomy, Horticulture and Plant Science, South Dakota State University, Brookings, SD, 57007, USA.
  4. Madhav P Nepal: Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA. madhav.nepal@sdstate.edu. ORCID
PMID: 31341170 DOI: 10.1038/s41597-019-0140-4

Abstract

Soybean aphid (Aphis glycines; SBA) and soybean cyst nematode (Heterodera glycines; SCN) are two major pests of soybean (Glycine max) in the United States of America. This study aims to characterize three-way interactions among soybean, SBA, and SCN using both demographic and genetic datasets. SCN-resistant and SCN-susceptible soybean cultivars with a combination of soybean aphids (biotype 1) and SCN (HG type 0) in a randomized complete block design (RCBD) with six blocks were used to evaluate the three-way interactions in a greenhouse setup. Treatments receiving SCN were infested at planting with 2000 nematode eggs, and the treatments with soybean aphids were infested at second trifoliate growth stage (V2) with 15 soybean aphids. The whole roots were sampled from plants at 5 and 30 days post SBA infestation for RNA sequencing using Illumina Hiseq. 3000. The data comprises of 47 libraries that are useful for further analyses of important genes, which are involved in interaction effects of SBA and SCN on soybean.

References

  1. Nucleic Acids Res. 2015 Apr 20;43(7):e47 [PMID: 25605792]
  2. PLoS Comput Biol. 2019 Feb 14;15(2):e1006792 [PMID: 30763315]
  3. Genomics. 2011 Aug;98(2):152-3 [PMID: 21651976]
  4. Environ Entomol. 2012 Dec;41(6):1565-74 [PMID: 23321105]
  5. Nat Methods. 2018 Jul;15(7):475-476 [PMID: 29967506]
  6. PLoS Comput Biol. 2015 Aug 06;11(8):e1004393 [PMID: 26248053]
  7. Nat Methods. 2017 Apr;14(4):417-419 [PMID: 28263959]
  8. J Anim Ecol. 2010 Jul;79(4):923-31 [PMID: 20302605]
  9. J Econ Entomol. 2011 Oct;104(5):1568-74 [PMID: 22066186]
  10. Plant Dis. 2005 Oct;89(10):1020-1026 [PMID: 30791267]
  11. Genome Biol. 2009;10(3):R25 [PMID: 19261174]
  12. Bioinformatics. 2011 Nov 15;27(22):3209-10 [PMID: 21976420]
  13. Bioinformatics. 2014 Aug 1;30(15):2114-20 [PMID: 24695404]
  14. Genome Biol. 2014;15(12):550 [PMID: 25516281]
  15. Plant Dis. 2007 Nov;91(11):1473-1476 [PMID: 30780744]
  16. PLoS One. 2014 Jan 22;9(1):e86415 [PMID: 24466080]
  17. Food Chem. 2016 Apr 1;196:776-82 [PMID: 26593554]
  18. Sci Data. 2019 Jul 24;6(1):133 [PMID: 31341170]
  19. Environ Entomol. 2010 Oct;39(5):1561-9 [PMID: 22546453]
  20. Phytopathology. 2016 Dec;106(12):1444-1450 [PMID: 27392178]
  21. Bioinformatics. 2016 Oct 1;32(19):3047-8 [PMID: 27312411]
  22. Bioinformatics. 2010 Jan 1;26(1):139-40 [PMID: 19910308]
  23. J Nematol. 2006 Jun;38(2):173-80 [PMID: 19259444]
  24. BMC Bioinformatics. 2018 Dec 19;19(1):534 [PMID: 30567491]
  25. Annu Rev Entomol. 2011;56:375-99 [PMID: 20868277]
  26. Nat Methods. 2015 Apr;12(4):357-60 [PMID: 25751142]
  27. Genome Biol. 2013 Apr 25;14(4):R36 [PMID: 23618408]
  28. Annu Rev Phytopathol. 2006;44:283-303 [PMID: 16704359]

Grants

  1. SD00H469-13/U.S. Department of Agriculture (United States Department of Agriculture)

MeSH Term

Animals
Aphids
Gene Expression Profiling
Plant Diseases
RNA-Seq
Glycine max
Transcriptome
Tylenchoidea
Dataset Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Links to CNCB-NGDC Resources

GEN: GEND000272 (Transcriptome profiling of interaction effects of soybean cyst nematodes and soybean aphids on soybean.)

Word Cloud

Similar Articles

Cited By