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  1. Article: GmGLU1 and GmRR4 contribute to iron deficiency tolerance in soybean.

    Kohlhase, Daniel R / O'Rourke, Jamie A / Graham, Michelle A

    Frontiers in plant science

    2024  Volume 15, Page(s) 1295952

    Abstract: Iron deficiency chlorosis (IDC) is a form of abiotic stress that negatively impacts soybean yield. In a previous study, we demonstrated that the historical IDC quantitative trait locus (QTL) on soybean chromosome Gm03 was composed of four distinct ... ...

    Abstract Iron deficiency chlorosis (IDC) is a form of abiotic stress that negatively impacts soybean yield. In a previous study, we demonstrated that the historical IDC quantitative trait locus (QTL) on soybean chromosome Gm03 was composed of four distinct linkage blocks, each containing candidate genes for IDC tolerance. Here, we take advantage of virus-induced gene silencing (VIGS) to validate the function of three high-priority candidate genes, each corresponding to a different linkage block in the Gm03 IDC QTL. We built three single-gene constructs to target
    Language English
    Publishing date 2024-02-27
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2613694-6
    ISSN 1664-462X
    ISSN 1664-462X
    DOI 10.3389/fpls.2024.1295952
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  2. Article ; Online: Inheritance of 4-hydroxyphenylpyruvate dioxygenase inhibitor herbicide resistance in an Amaranthus tuberculatus population from Iowa, USA.

    Kohlhase, Daniel R / Edwards, Jode W / Owen, Micheal D K

    Plant science : an international journal of experimental plant biology

    2018  Volume 274, Page(s) 360–368

    Abstract: Waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer) is a weed prevalent in the Midwest United States and can cause yield losses up to 74% in maize (Zea mays L.) and 56% in soybean (Glycine max (L.) Merr.). An important adaptive trait commonly found in ... ...

    Abstract Waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer) is a weed prevalent in the Midwest United States and can cause yield losses up to 74% in maize (Zea mays L.) and 56% in soybean (Glycine max (L.) Merr.). An important adaptive trait commonly found in waterhemp is the ability to evolve herbicide resistance and waterhemp populations have evolved resistance to six herbicide sites of action. In 2011, two waterhemp populations were discovered resistant to p-hydroxyphenylpyruvate-dioxygenase (HPPD, EC 1.13.11.27) inhibitor herbicides. We reciprocally crossed a known HPPD-resistant waterhemp population with a known HPPD-susceptible waterhemp population and then intermated the F
    MeSH term(s) 4-Hydroxyphenylpyruvate Dioxygenase/antagonists & inhibitors ; 4-Hydroxyphenylpyruvate Dioxygenase/genetics ; Amaranthus/drug effects ; Amaranthus/genetics ; Biological Evolution ; Herbicide Resistance/genetics ; Herbicides/pharmacology ; Iowa ; Multifactorial Inheritance
    Chemical Substances Herbicides ; 4-Hydroxyphenylpyruvate Dioxygenase (EC 1.13.11.27)
    Language English
    Publishing date 2018-06-12
    Publishing country Ireland
    Document type Journal Article
    ZDB-ID 742010-9
    ISSN 1873-2259 ; 0168-9452
    ISSN (online) 1873-2259
    ISSN 0168-9452
    DOI 10.1016/j.plantsci.2018.06.004
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: Comparing early transcriptomic responses of 18 soybean (Glycine max) genotypes to iron stress

    Kohlhase, Daniel R. / Mccabe, Chantal E. / Singh, Asheesh K. / O'Rourke, Jamie A. / Graham, Michelle A.

    International journal of molecular sciences. 2021 Oct. 28, v. 22, no. 21

    2021  

    Abstract: Iron deficiency chlorosis (IDC) is an abiotic stress that negatively affects soybean (Glycine max [L.] Merr.) production. Much of our knowledge of IDC stress responses comes from model plant species. Gene expression, quantitative trait loci (QTL) mapping, ...

    Abstract Iron deficiency chlorosis (IDC) is an abiotic stress that negatively affects soybean (Glycine max [L.] Merr.) production. Much of our knowledge of IDC stress responses comes from model plant species. Gene expression, quantitative trait loci (QTL) mapping, and genome-wide association studies (GWAS) performed in soybean suggest 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 used RNA-sequencing to examine expression differences in the leaves and root tissue of 18 diverse soybean genotypes in response to iron deficiency. We found a rapid response to iron deficiency across genotypes, most responding within 60 minutes of stress. There was little evidence of overlap of specific differentially expressed genes and comparisons of gene ontology terms and transcription factor families suggest utilization of different pathways in stress response. These initial findings suggest untapped genetic potential within the soybean germplasm collection that could be used for continued improvement of iron-efficiency in soybean.
    Keywords Glycine max ; abiotic stress ; chlorosis ; crops ; gene expression ; gene expression regulation ; gene ontology ; germplasm ; germplasm conservation ; models ; quantitative traits ; sequence analysis ; soybeans ; stress response ; transcription factors ; transcriptomics
    Language English
    Dates of publication 2021-1028
    Document type Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1661-6596
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms222111643
    Database NAL-Catalogue (AGRICOLA)

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  4. Article: Using RNA-seq to characterize responses to 4-hydroxyphenylpyruvate dioxygenase (HPPD) inhibitor herbicide resistance in waterhemp (Amaranthus tuberculatus)

    Kohlhase, Daniel R / O’Rourke, Jamie A / Owen, Micheal D. K / Graham, Michelle A

    BMC plant biology. 2019 Dec., v. 19, no. 1

    2019  

    Abstract: BACKGROUND: Waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer) is a problem weed commonly found in the Midwestern United States that can cause crippling yield losses for both maize (Zea mays L.) and soybean (Glycine max L. Merr). In 2011, 4- ... ...

    Abstract BACKGROUND: Waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer) is a problem weed commonly found in the Midwestern United States that can cause crippling yield losses for both maize (Zea mays L.) and soybean (Glycine max L. Merr). In 2011, 4-hydroxyphenylpyruvate-dioxygenase (HPPD, EC 1.13.11.27) inhibitor herbicide resistance was first reported in two waterhemp populations. Since the discovery of HPPD-herbicide resistance, studies have identified the mechanism of resistance and described the inheritance of the herbicide resistance. However, no studies have examined genome-wide gene expression changes in response to herbicide treatment in herbicide resistant and susceptible waterhemp. RESULTS: We conducted RNA-sequencing (RNA-seq) analyses of two waterhemp populations (HPPD-herbicide resistant and susceptible), from herbicide-treated and mock-treated leaf samples at three, six, twelve, and twenty-four hours after treatment (HAT). We performed a de novo transcriptome assembly using all sample sequences. Following assessments of our assembly, individual samples were mapped to the de novo transcriptome allowing us to identify transcripts specific to a genotype, herbicide treatment, or time point. Our results indicate that the response of HPPD-herbicide resistant and susceptible waterhemp genotypes to HPPD-inhibiting herbicide is rapid, established as soon as 3 hours after herbicide treatment. Further, there was little overlap in gene expression between resistant and susceptible genotypes, highlighting dynamic differences in response to herbicide treatment. In addition, we used stringent analytical methods to identify candidate single nucleotide polymorphisms (SNPs) that distinguish the resistant and susceptible genotypes. CONCLUSIONS: The waterhemp transcriptome, herbicide-responsive genes, and SNPs generated in this study provide valuable tools for future studies by numerous plant science communities. This collection of resources is essential to study and understand herbicide effects on gene expression in resistant and susceptible weeds. Understanding how herbicides impact gene expression could allow us to develop novel approaches for future herbicide development. Additionally, an increased understanding of the prolific traits intrinsic in weed success could lead to crop improvement.
    Keywords 4-hydroxyphenylpyruvate dioxygenase ; Amaranthus tuberculatus ; Glycine max ; Zea mays ; analytical methods ; corn ; gene expression ; genes ; genotype ; herbicide resistance ; herbicides ; leaves ; messenger RNA ; sequence analysis ; single nucleotide polymorphism ; soybeans ; transcriptome ; weeds ; Midwestern United States
    Language English
    Dates of publication 2019-12
    Size p. 182.
    Publishing place BioMed Central
    Document type Article
    ISSN 1471-2229
    DOI 10.1186/s12870-019-1795-x
    Database NAL-Catalogue (AGRICOLA)

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  5. Article ; Online: Comparing Early Transcriptomic Responses of 18 Soybean (

    Kohlhase, Daniel R / McCabe, Chantal E / Singh, Asheesh K / O'Rourke, Jamie A / Graham, Michelle A

    International journal of molecular sciences

    2021  Volume 22, Issue 21

    Abstract: Iron deficiency chlorosis (IDC) is an abiotic stress that negatively affects soybean ( ...

    Abstract Iron deficiency chlorosis (IDC) is an abiotic stress that negatively affects soybean (
    MeSH term(s) Gene Expression Regulation, Plant ; Genome-Wide Association Study ; Iron/metabolism ; Quantitative Trait Loci ; Glycine max/genetics ; Glycine max/metabolism ; Stress, Physiological ; Transcriptome
    Chemical Substances Iron (E1UOL152H7)
    Language English
    Publishing date 2021-10-28
    Publishing country Switzerland
    Document type Comparative Study ; Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms222111643
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Order via subito

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  6. Article ; Online: Using RNA-seq to characterize responses to 4-hydroxyphenylpyruvate dioxygenase (HPPD) inhibitor herbicide resistance in waterhemp (Amaranthus tuberculatus).

    Kohlhase, Daniel R / O'Rourke, Jamie A / Owen, Micheal D K / Graham, Michelle A

    BMC plant biology

    2019  Volume 19, Issue 1, Page(s) 182

    Abstract: Background: Waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer) is a problem weed commonly found in the Midwestern United States that can cause crippling yield losses for both maize (Zea mays L.) and soybean (Glycine max L. Merr). In 2011, 4- ... ...

    Abstract Background: Waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer) is a problem weed commonly found in the Midwestern United States that can cause crippling yield losses for both maize (Zea mays L.) and soybean (Glycine max L. Merr). In 2011, 4-hydroxyphenylpyruvate-dioxygenase (HPPD, EC 1.13.11.27) inhibitor herbicide resistance was first reported in two waterhemp populations. Since the discovery of HPPD-herbicide resistance, studies have identified the mechanism of resistance and described the inheritance of the herbicide resistance. However, no studies have examined genome-wide gene expression changes in response to herbicide treatment in herbicide resistant and susceptible waterhemp.
    Results: We conducted RNA-sequencing (RNA-seq) analyses of two waterhemp populations (HPPD-herbicide resistant and susceptible), from herbicide-treated and mock-treated leaf samples at three, six, twelve, and twenty-four hours after treatment (HAT). We performed a de novo transcriptome assembly using all sample sequences. Following assessments of our assembly, individual samples were mapped to the de novo transcriptome allowing us to identify transcripts specific to a genotype, herbicide treatment, or time point. Our results indicate that the response of HPPD-herbicide resistant and susceptible waterhemp genotypes to HPPD-inhibiting herbicide is rapid, established as soon as 3 hours after herbicide treatment. Further, there was little overlap in gene expression between resistant and susceptible genotypes, highlighting dynamic differences in response to herbicide treatment. In addition, we used stringent analytical methods to identify candidate single nucleotide polymorphisms (SNPs) that distinguish the resistant and susceptible genotypes.
    Conclusions: The waterhemp transcriptome, herbicide-responsive genes, and SNPs generated in this study provide valuable tools for future studies by numerous plant science communities. This collection of resources is essential to study and understand herbicide effects on gene expression in resistant and susceptible weeds. Understanding how herbicides impact gene expression could allow us to develop novel approaches for future herbicide development. Additionally, an increased understanding of the prolific traits intrinsic in weed success could lead to crop improvement.
    MeSH term(s) 4-Hydroxyphenylpyruvate Dioxygenase/antagonists & inhibitors ; 4-Hydroxyphenylpyruvate Dioxygenase/metabolism ; Amaranthus/drug effects ; Amaranthus/enzymology ; Amaranthus/genetics ; Cyclohexanones/toxicity ; Enzyme Inhibitors/pharmacology ; Gene Expression Regulation, Plant/drug effects ; Gene Ontology ; Gene Regulatory Networks ; Genotype ; Herbicide Resistance/genetics ; Molecular Sequence Annotation ; Phenotype ; Polymorphism, Single Nucleotide/genetics ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Sequence Analysis, RNA ; Transcriptome/genetics
    Chemical Substances Cyclohexanones ; Enzyme Inhibitors ; RNA, Messenger ; mesotrione (48TR68G21T) ; 4-Hydroxyphenylpyruvate Dioxygenase (EC 1.13.11.27)
    Language English
    Publishing date 2019-05-06
    Publishing country England
    Document type Journal Article
    ISSN 1471-2229
    ISSN (online) 1471-2229
    DOI 10.1186/s12870-019-1795-x
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article: Inheritance of 4-hydroxyphenylpyruvate dioxygenase inhibitor herbicide resistance in an Amaranthus tuberculatus population from Iowa, USA

    Kohlhase, Daniel R / Jode W. Edwards / Micheal D.K. Owen

    Plant science. 2018 Sept., v. 274

    2018  

    Abstract: Waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer) is a weed prevalent in the Midwest United States and can cause yield losses up to 74% in maize (Zea mays L.) and 56% in soybean (Glycine max (L.) Merr.). An important adaptive trait commonly found in ... ...

    Abstract Waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer) is a weed prevalent in the Midwest United States and can cause yield losses up to 74% in maize (Zea mays L.) and 56% in soybean (Glycine max (L.) Merr.). An important adaptive trait commonly found in waterhemp is the ability to evolve herbicide resistance and waterhemp populations have evolved resistance to six herbicide sites of action. In 2011, two waterhemp populations were discovered resistant to p-hydroxyphenylpyruvate-dioxygenase (HPPD, EC 1.13.11.27) inhibitor herbicides. We reciprocally crossed a known HPPD-resistant waterhemp population with a known HPPD-susceptible waterhemp population and then intermated the F1 families to established a pseudo-F2 generation. We challenged the parent, F1 and pseudo-F2 generations against four HPPD-inhibiting herbicide rates (mesotrione). Our results suggest the HPPD-resistance trait is polygenic. Furthermore, the number of genes involved with the herbicide resistance increase at higher herbicide rates. These data indicated at least one dominant allele at each major locus is required to confer HPPD herbicide resistance in waterhemp. Using different waterhemp populations and methodologies, this study confirms the reported “complex” HPPD resistance inheritance while providing new information in the response of HPPD-resistant waterhemp to HPPD herbicides.
    Keywords 4-hydroxyphenylpyruvate dioxygenase ; alleles ; Amaranthus tuberculatus ; corn ; enzyme inhibitors ; Glycine max ; herbicide resistance ; loci ; mesotrione ; soybeans ; weeds ; Zea mays ; Iowa
    Language English
    Dates of publication 2018-09
    Size p. 360-368.
    Publishing place Elsevier B.V.
    Document type Article
    ZDB-ID 742010-9
    ISSN 1873-2259 ; 0168-9452
    ISSN (online) 1873-2259
    ISSN 0168-9452
    DOI 10.1016/j.plantsci.2018.06.004
    Database NAL-Catalogue (AGRICOLA)

    Full text online

    More links

    Kategorien

    In stock of ZB MED Bonn / Germany

    Z 77/717: Show issues

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

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