Comparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress

Iron deficiency chlorosis (IDC) is an abiotic stress that negatively affects soybean (<i>Glycine max</i> [L.] Merr.) production. Much of our knowledge of IDC stress responses is derived from model plant species. Gene expression, quantitative trait loci (QTL) mapping, and genome-wide asso...

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Autores principales:	Daniel R. Kohlhase, Chantal E. McCabe, Asheesh K. Singh, Jamie A. O’Rourke, Michelle A. Graham
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	<i>Glycine max</i> soybean iron deficiency chlorosis abiotic stress RNA-seq comparative transcriptomics Biology (General) QH301-705.5 Chemistry QD1-999
Acceso en línea:	https://doaj.org/article/ff2285973ce54d048f13a8ba31d25978
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spelling	oai:doaj.org-article:ff2285973ce54d048f13a8ba31d259782021-11-11T17:07:09ZComparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress10.3390/ijms2221116431422-00671661-6596https://doaj.org/article/ff2285973ce54d048f13a8ba31d259782021-10-01T00:00:00Zhttps://www.mdpi.com/1422-0067/22/21/11643https://doaj.org/toc/1661-6596https://doaj.org/toc/1422-0067Iron deficiency chlorosis (IDC) is an abiotic stress that negatively affects soybean (<i>Glycine max</i> [L.] Merr.) production. Much of our knowledge of IDC stress responses is derived from model plant species. Gene expression, quantitative trait loci (QTL) mapping, and genome-wide association studies (GWAS) performed in soybean suggest that stress response differences exist between model and crop species. Our current understanding of the molecular response to IDC in soybeans is largely derived from gene expression studies using near-isogenic lines differing in iron efficiency. To improve iron efficiency in soybeans and other crops, we need to expand gene expression studies to include the diversity present in germplasm collections. Therefore, we collected 216 purified RNA samples (18 genotypes, two tissue types [leaves and roots], two iron treatments [sufficient and deficient], three replicates) and used RNA sequencing to examine the expression differences of 18 diverse soybean genotypes in response to iron deficiency. We found a rapid response to iron deficiency across genotypes, most responding within 60 min of stress. There was little evidence of an overlap of specific differentially expressed genes, and comparisons of gene ontology terms and transcription factor families suggest the utilization of different pathways in the stress response. These initial findings suggest an untapped genetic potential within the soybean germplasm collection that could be used for the continued improvement of iron efficiency in soybean.Daniel R. KohlhaseChantal E. McCabeAsheesh K. SinghJamie A. O’RourkeMichelle A. GrahamMDPI AGarticle<i>Glycine max</i>soybeaniron deficiency chlorosisabiotic stressRNA-seqcomparative transcriptomicsBiology (General)QH301-705.5ChemistryQD1-999ENInternational Journal of Molecular Sciences, Vol 22, Iss 11643, p 11643 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	<i>Glycine max</i> soybean iron deficiency chlorosis abiotic stress RNA-seq comparative transcriptomics Biology (General) QH301-705.5 Chemistry QD1-999
spellingShingle	<i>Glycine max</i> soybean iron deficiency chlorosis abiotic stress RNA-seq comparative transcriptomics Biology (General) QH301-705.5 Chemistry QD1-999 Daniel R. Kohlhase Chantal E. McCabe Asheesh K. Singh Jamie A. O’Rourke Michelle A. Graham Comparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress
description	Iron deficiency chlorosis (IDC) is an abiotic stress that negatively affects soybean (<i>Glycine max</i> [L.] Merr.) production. Much of our knowledge of IDC stress responses is derived from model plant species. Gene expression, quantitative trait loci (QTL) mapping, and genome-wide association studies (GWAS) performed in soybean suggest that stress response differences exist between model and crop species. Our current understanding of the molecular response to IDC in soybeans is largely derived from gene expression studies using near-isogenic lines differing in iron efficiency. To improve iron efficiency in soybeans and other crops, we need to expand gene expression studies to include the diversity present in germplasm collections. Therefore, we collected 216 purified RNA samples (18 genotypes, two tissue types [leaves and roots], two iron treatments [sufficient and deficient], three replicates) and used RNA sequencing to examine the expression differences of 18 diverse soybean genotypes in response to iron deficiency. We found a rapid response to iron deficiency across genotypes, most responding within 60 min of stress. There was little evidence of an overlap of specific differentially expressed genes, and comparisons of gene ontology terms and transcription factor families suggest the utilization of different pathways in the stress response. These initial findings suggest an untapped genetic potential within the soybean germplasm collection that could be used for the continued improvement of iron efficiency in soybean.
format	article
author	Daniel R. Kohlhase Chantal E. McCabe Asheesh K. Singh Jamie A. O’Rourke Michelle A. Graham
author_facet	Daniel R. Kohlhase Chantal E. McCabe Asheesh K. Singh Jamie A. O’Rourke Michelle A. Graham
author_sort	Daniel R. Kohlhase
title	Comparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress
title_short	Comparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress
title_full	Comparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress
title_fullStr	Comparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress
title_full_unstemmed	Comparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress
title_sort	comparing early transcriptomic responses of 18 soybean (<i>glycine max</i>) genotypes to iron stress
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/ff2285973ce54d048f13a8ba31d25978
work_keys_str_mv	AT danielrkohlhase comparingearlytranscriptomicresponsesof18soybeaniglycinemaxigenotypestoironstress AT chantalemccabe comparingearlytranscriptomicresponsesof18soybeaniglycinemaxigenotypestoironstress AT asheeshksingh comparingearlytranscriptomicresponsesof18soybeaniglycinemaxigenotypestoironstress AT jamieaorourke comparingearlytranscriptomicresponsesof18soybeaniglycinemaxigenotypestoironstress AT michelleagraham comparingearlytranscriptomicresponsesof18soybeaniglycinemaxigenotypestoironstress
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Comparing Early Transcriptomic Responses of 18 Soybean (<i>Glycine max</i>) Genotypes to Iron Stress

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