Genome-wide association study for soybean cyst nematode resistance in Chinese elite soybean cultivars

Zhang, Jun; Zhang, Wen; Li, Wei; Zhang, Yanwei; Zhang, Lifeng; Hai-ying, Dai; Wang, Dechun; Xu, Ran

doi:10.1007/s11032-017-0665-1

Cited by 26 publications

(14 citation statements)

References 41 publications

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“…Genome-wide association study (GWAS) could also be an effective way to identity resistance QTLs. For instance, 13 single nucleotide polymorphisms (SNPs) associated with soybean cyst nematode resistance in soybean were identified, in which 3 SNPs were linked to the previously reported QTLs Rhg1 and Rhg4 [ 103 ].…”

Section: Nematode Effectors Mimic Defense Responses In Host Plantsmentioning

confidence: 99%

Signal Transduction in Plant–Nematode Interactions

Ali

Anjam

Nawaz

et al. 2018

IJMS

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To successfully invade and infect their host plants, plant parasitic nematodes (PPNs) need to evolve molecular mechanisms to overcome the defense responses from the plants. Nematode-associated molecular patterns (NAMPs), including ascarosides and certain proteins, while instrumental in enabling the infection, can be perceived by the host plants, which then initiate a signaling cascade leading to the induction of basal defense responses. To combat host resistance, some nematodes can inject effectors into the cells of susceptible hosts to reprogram the basal resistance signaling and also modulate the hosts’ gene expression patterns to facilitate the establishment of nematode feeding sites (NFSs). In this review, we summarized all the known signaling pathways involved in plant–nematode interactions. Specifically, we placed particular focus on the effector proteins from PPNs that mimic the signaling of the defense responses in host plants. Furthermore, we gave an updated overview of the regulation by PPNs of different host defense pathways such as salicylic acid (SA)/jasmonic acid (JA), auxin, and cytokinin and reactive oxygen species (ROS) signaling to facilitate their parasitic successes in plants. This review will enhance the understanding of the molecular signaling pathways involved in both compatible and incompatible plant–nematode interactions.

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Section: Nematode Effectors Mimic Defense Responses In Host Plantsmentioning

confidence: 99%

Signal Transduction in Plant–Nematode Interactions

Ali

Anjam

Nawaz

et al. 2018

IJMS

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“…As efficient tools for candidate gene prediction, Phytozome and Soybase genome browsers (https://phytozome.jgi.doe.gov/jbrowse/ and https://soybase.org/gb2/gbrowse/) provided a mechanism to search and predict putative candidate genes for iron deficiency chlorosis [51], nitrogen fixation traits [52], soybean seed germination under salt stress [49], sudden death syndrome resistance [53], Phytophthora sojae resistance [54], and soybean cyst nematode resistance [55, 56]. Using a similar approach, Glyma.08 g146100 (EamA-like transporter family), Glyma.08 g157400 (SF9 - Callose synthase), Glyma.08 g224400 (V-type H + -transporting ATPase subunit A), and Glyma.08 g225500 (SF11 - Pyrophosphate-energized membrane proton pump) were predicted as putative candidate genes for salt tolerance that was mapped on Chr.…”

Section: Discussionmentioning

confidence: 99%

Identification of new loci for salt tolerance in soybean by high-resolution genome-wide association mapping

et al. 2019

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Background Salinity is an abiotic stress that negatively affects soybean [ Glycine max (L.) Merr.] seed yield. Although a major gene for salt tolerance was identified and consistently mapped to chromosome (Chr.) 3 by linkage mapping studies, it does not fully explain genetic variability for tolerance in soybean germplasm. In this study, a genome-wide association study (GWAS) was performed to map genomic regions for salt tolerance in a diverse panel of 305 soybean accessions using a single nucleotide polymorphism (SNP) dataset derived from the SoySNP50K iSelect BeadChip. A second GWAS was also conducted in a subset of 234 accessions using another 3.7 M SNP dataset derived from a whole-genome resequencing (WGRS) study. In addition, three gene-based markers (GBM) of the known gene, Glyma03g32900 , on Chr. 3 were also integrated into the two datasets. Salt tolerance among soybean lines was evaluated by leaf scorch score (LSS), chlorophyll content ratio (CCR), leaf sodium content (LSC), and leaf chloride content (LCC). Results For both association studies, a major locus for salt tolerance on Chr. 3 was confirmed by a number of significant SNPs, of which three gene-based SNP markers, Salt-20, Salt14056 and Salt11655, had the highest association with all four traits studied. Also, additional genomic regions on Chrs. 1, 8, and 18 were found to be associated with various traits measured in the second GWAS using the WGRS-derived SNP dataset. Conclusions A region identified on Chr. 8 was identified to be associated with all four traits and predicted as a new minor locus for salt tolerance in soybean. The candidate genes harbored in this minor locus may help reveal the molecular mechanism involved in salt tolerance and to improve tolerance in soybean cultivars. The significant SNPs will be useful for marker-assisted selection for salt tolerance in soybean breeding programs. Electronic supplementary material The online version of this article (10.1186/s12864-019-5662-9) contains supplementary material, which is available to authorized users.

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“…For example, the stacking of QTLs from both wild and cultivated soybeans was applied to increase the resistance against soybean cyst nematode (SCN) [25]. Using a genome-wide association study (GWAS) in combination with RNA-Seq analysis, the genetic architecture and gene regulatory networks of SCN resistance were delineated [26,27]. In response to environmental changes, genes and transcription factors identified from wild soybean have been reported to enhance drought stress tolerance via the regulation of the abscisic acid signaling pathway [28].…”

Section: Role Of Wild Soybean In Soybean Improvement Programsmentioning

confidence: 99%

Korean Wild Soybeans (Glycine soja Sieb & Zucc.): Geographic Distribution and Germplasm Conservation

et al. 2020

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Domesticated crops suffer from major genetic bottlenecks while wild relatives retain higher genomic diversity. Wild soybean (Glycine soja Sieb. & Zucc.) is the presumed ancestor of cultivated soybean (Glycine max [L.] Merr.), and is an important genetic resource for soybean improvement. Among the East Asian habitats of wild soybean (China, Japan, Korea, and Northeastern Russia), the Korean peninsula is of great importance based on archaeological records, domestication history, and higher diversity of wild soybeans in the region. The collection and conservation of these wild soybean germplasms should be put on high priority. Chung’s Wild Legume Germplasm Collection maintains more than 10,000 legume accessions with an intensive and prioritized wild soybean germplasm collection (>6000 accessions) guided by the international code of conduct for plant germplasm collection and transfer. The center holds a library of unique wild soybean germplasms collected from East Asian wild habitats including the Korean mainland and nearby islands. The collection has revealed interesting and useful morphological, biochemical, and genetic diversity. This resource could be utilized efficiently in ongoing soybean improvement programs across the globe.

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Genome-wide association study for soybean cyst nematode resistance in Chinese elite soybean cultivars

Cited by 26 publications

References 41 publications

Signal Transduction in Plant–Nematode Interactions

Signal Transduction in Plant–Nematode Interactions

Identification of new loci for salt tolerance in soybean by high-resolution genome-wide association mapping

Korean Wild Soybeans (Glycine soja Sieb & Zucc.): Geographic Distribution and Germplasm Conservation

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