ArticleBMC genomics2009
Integrating microarray analysis and the soybean genome to understand the soybeans iron deficiency response.
Article in BMC genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed, 62 citations in OpenAlex.
- GmGLU1 and GmRR4 contribute to iron deficiency tolerance in soybean.Frontiers in plant science · 2024Article
- Comparing Early Transcriptomic Responses of 18 Soybean (International journal of molecular sciences · 2021Article
- Predictions from algorithmic modeling result in better decisions than from data modeling for soybean iron deficiency chlorosis.PloS one · 2021Article
- Examining Short-Term Responses to a Long-Term Problem: RNA-Seq Analyses of Iron Deficiency Chlorosis Tolerant Soybean.International journal of molecular sciences · 2020Article
- Dynamic gene expression changes in response to micronutrient, macronutrient, and multiple stress exposures in soybean.Functional & integrative genomics · 2020Article
- Deconstructing the genetic architecture of iron deficiency chlorosis in soybean using genome-wide approaches.BMC plant biology · 2020Article
- Iron deficiency triggered transcriptome changes in bread wheat.Computational and structural biotechnology journal · 2020Article
- Comprehensive mapping of abiotic stress inputs into the soybean circadian clock.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Identification and Fine-Mapping of a Soybean Quantitative Trait Locus on Chromosome 5 Conferring Tolerance to Iron Deficiency Chlorosis.The plant genome · 2019Article
- Understanding the Role of the Antioxidant System and the Tetrapyrrole Cycle in Iron Deficiency Chlorosis.Plants (Basel, Switzerland) · 2019Article
- Common and specific responses to iron and phosphorus deficiencies in roots of apple tree (Malus × domestica).Plant molecular biology · 2019Article
- Gene Expression Profiling of Iron Deficiency Chlorosis Sensitive and Tolerant Soybean Indicates Key Roles for Phenylpropanoids under Alkalinity Stress.Frontiers in plant science · 2018Article
- Physiological and Transcriptional Changes of Three Citrus Rootstock Seedlings under Iron Deficiency.Frontiers in plant science · 2017Article
- The Understanding of the Plant Iron Deficiency Responses in Strategy I Plants and the Role of Ethylene in This Process by Omic Approaches.Frontiers in plant science · 2017Review
- Early transcriptomic response to Fe supply in Fe-deficient tomato plants is strongly influenced by the nature of the chelating agent.BMC genomics · 2016Article
- Transcriptional Characterization of a Widely-Used Grapevine Rootstock Genotype under Different Iron-Limited Conditions.Frontiers in plant science · 2016Article
- Identification of candidate genes involved in early iron deficiency chlorosis signaling in soybean (Glycine max) roots and leaves.BMC genomics · 2014Article
- Review
- Changes in the transcriptomic profiles of maize roots in response to iron-deficiency stress.Plant molecular biology · 2014Article
- High relative air humidity influences mineral accumulation and growth in iron deficient soybean plants.Frontiers in plant science · 2014Article
Corrections and comments
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Authors and funding
9 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSoybeans grown in the upper Midwestern United States often suffer from iron deficiency chlorosis, which results in yield loss at the end of the season. To better understand the effect of iron availability on soybean yield, we identified genes in two near isogenic lines with changes in expression patterns when plants were grown in iron sufficient and iron deficient conditions.
resultsTranscriptional profiles of soybean (Glycine max, L. Merr) near isogenic lines Clark (PI548553, iron efficient) and IsoClark (PI547430, iron inefficient) grown under Fe-sufficient and Fe-limited conditions were analyzed and compared using the Affymetrix GeneChip Soybean Genome Array. There were 835 candidate genes in the Clark (PI548553) genotype and 200 candidate genes in the IsoClark (PI547430) genotype putatively involved in soybean's iron stress response. Of these candidate genes, fifty-eight genes in the Clark genotype were identified with a genetic location within known iron efficiency QTL and 21 in the IsoClark genotype. The arrays also identified 170 single feature polymorphisms (SFPs) specific to either Clark or IsoClark. A sliding window analysis of the microarray data and the 7X genome assembly coupled with an iterative model of the data showed the candidate genes are clustered in the genome. An analysis of 5' untranslated regions in the promoter of candidate genes identified 11 conserved motifs in 248 differentially expressed genes, all from the Clark genotype, representing 129 clusters identified earlier, confirming the cluster analysis results.
conclusionThese analyses have identified the first genes with expression patterns that are affected by iron stress and are located within QTL specific to iron deficiency stress. The genetic location and promoter motif analysis results support the hypothesis that the differentially expressed genes are co-regulated. The combined results of all analyses lead us to postulate iron inefficiency in soybean is a result of a mutation in a transcription factor(s), which controls the expression of genes required in inducing an iron stress response.
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