Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

Martin, Kathleen; Singh, Jugpreet; Hill, John H.; Whitham, Steven A.; Cannon, Steven B.

doi:10.1186/s12864-016-2976-8

Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

Journal Article · Thu Aug 11 00:00:00 EDT 2016 · BMC Genomics

DOI:https://doi.org/10.1186/s12864-016-2976-8· OSTI ID:1626800

Martin, Kathleen ^[1]; Singh, Jugpreet ^[2]; Hill, John H. ^[3]; Whitham, Steven A. ^[3]; Cannon, Steven B. ^[4]

Kansas State Univ., Manhattan, KS (United States). Dept. of Plant Pathology; DOE/OSTI
Oak Ridge Inst. for Science and Education (ORISE), Oak Ridge, TN (United States); US Dept. of Agriculture (USDA), Ames, IA (United States). Agricultural Research Service (ARS), Corn Insects and Crop Genetics Research Unit
Iowa State Univ., Ames, IA (United States). Dept. of Plant Pathology and Microbiology
Iowa State Univ., Ames, IA (United States). Dept. of Agronomy; US Dept. of Agriculture (USDA), Ames, IA (United States). Agriculture Research Service (ARS), Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab.

Background: Bean common mosaic virus (BCMV) is widespread, with Phaseolus species as the primary host plants. Numerous BCMV strains have been identified on the basis of a panel of bean varieties that distinguish the pathogenicity types with respect to the viral strains. The molecular responses in Phaseolus to BCMV infection have not yet been well characterized. Results: We report the transcriptional responses of a widely susceptible variety of common bean (Phaseolus vulgaris L., cultivar ‘Stringless green refugee’) to two BCMV strains, in a time-course experiment. We also report the genome sequence of a previously unreported BCMV strain. The interaction with the known strain NL1-Iowa causes moderate symptoms and large transcriptional responses, and the newly identified strain (Strain 2 or S2) causes severe symptoms and moderate transcriptional responses. The transcriptional profiles of host plants infected with the two isolates are distinct, and involve numerous differences in splice forms in particular genes, and pathway specific expression patterns. Conclusions: We identified differential host transcriptome response after infection of two different strains of Bean common mosaic virus (BCMV) in common bean (Phaseolus vulgaris L.). Virus infection initiated a suite of changes in gene expression level and patterns in the host plants. Pathways related to defense, gene regulation, metabolic processes, photosynthesis were specifically altered after virus infection. Results presented in this study can increase the understanding of host-pathogen interactions and provide resources for further investigations of the biological mechanisms in BCMV infection and defense.

View Accepted Manuscript (DOE)

Research Organization:: Iowa State Univ., Ames, IA (United States); Oak Ridge Institute for Science and Education (ORISE), Oak Ridge, TN (United States)

Sponsoring Organization:: Agricultural Research Service (ARS); USDA; USDOE

Grant/Contract Number:: AC05-06OR23100

OSTI ID:: 1626800

Journal Information:: BMC Genomics, Journal Name: BMC Genomics Journal Issue: 1 Vol. 17; ISSN 1471-2164

Publisher:: SpringerCopyright Statement

Country of Publication:: United States

Language:: English

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59 BASIC BIOLOGICAL SCIENCES
60 APPLIED LIFE SCIENCES
Bean common mosaic virus
Biotechnology & applied microbiology
Gene expression
Gene regulation
Genetics & heredity
Host-virus interaction
Phaseolus vulgaris
Regulatory changes

Additional file 11: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/M9.FIGSHARE.C.3625595_D23 The current record is supplemented by this dataset	dataset	January 2016
Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595 The current record is supplemented by this collection	collection	January 2016
Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595.v1 The current record is supplemented by this collection	collection	January 2016
Additional file 8: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 8: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d1.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 13: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d10 The current record is supplemented by this dataset	dataset	January 2016
Additional file 13: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d10.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 7: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d11 The current record is supplemented by this dataset	dataset	January 2016
Additional file 7: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d11.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 4: Table S2. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d12 The current record is supplemented by this text	text	January 2016
Additional file 4: Table S2. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d12.v1 The current record is supplemented by this text	text	January 2016
Additional file 3: Table S1. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d13 The current record is supplemented by this text	text	January 2016
Additional file 3: Table S1. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d13.v1 The current record is supplemented by this text	text	January 2016
Additional file 23: Table S5. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d14 The current record is supplemented by this text	text	January 2016
Additional file 23: Table S5. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d14.v1 The current record is supplemented by this text	text	January 2016
Additional file 18: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d15 The current record is supplemented by this dataset	dataset	January 2016
Additional file 18: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d15.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 20: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d16 The current record is supplemented by this dataset	dataset	January 2016
Additional file 20: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d16.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 1: Figure S1. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d17 The current record is supplemented by this image	image	January 2016
Additional file 1: Figure S1. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d17.v1 The current record is supplemented by this image	image	January 2016
Additional file 21: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d18 The current record is supplemented by this dataset	dataset	January 2016
Additional file 21: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d18.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 6: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d19 The current record is supplemented by this dataset	dataset	January 2016
Additional file 6: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d19.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 17: Table S4. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d2 The current record is supplemented by this text	text	January 2016
Additional file 17: Table S4. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d2.v1 The current record is supplemented by this text	text	January 2016
Additional file 5: Table S3. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d20 The current record is supplemented by this text	text	January 2016
Additional file 5: Table S3. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d20.v1 The current record is supplemented by this text	text	January 2016
Additional file 14: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d21 The current record is supplemented by this dataset	dataset	January 2016
Additional file 14: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d21.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 2: Figure S4. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d22 The current record is supplemented by this image	image	January 2016
Additional file 2: Figure S4. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d22.v1 The current record is supplemented by this image	image	January 2016
Additional file 11: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d23.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 12: Figure S3. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d3 The current record is supplemented by this image	image	January 2016
Additional file 12: Figure S3. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d3.v1 The current record is supplemented by this image	image	January 2016
Additional file 10: Figure S2. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d4 The current record is supplemented by this image	image	January 2016
Additional file 10: Figure S2. of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d4.v1 The current record is supplemented by this image	image	January 2016
Additional file 15: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d5 The current record is supplemented by this dataset	dataset	January 2016
Additional file 15: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d5.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 19: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d6 The current record is supplemented by this dataset	dataset	January 2016
Additional file 19: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d6.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 16 of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d7 The current record is supplemented by this dataset	dataset	January 2016
Additional file 16 of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d7.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 22: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d8 The current record is supplemented by this dataset	dataset	January 2016
Additional file 22: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d8.v1 The current record is supplemented by this dataset	dataset	January 2016
Additional file 9: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d9 The current record is supplemented by this dataset	dataset	January 2016
Additional file 9: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.) Martin, Kathleen; Singh, Jugpreet; Hill, John https://doi.org/10.6084/m9.figshare.c.3625595_d9.v1 The current record is supplemented by this dataset	dataset	January 2016

Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

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