QTL mapping for soybean (Glycine max L.) leaf chlorophyll-content traits in a genotyped RIL population by using RAD-seq based high-density linkage map

Wang, Liang; Conteh, Brima; Fang, Linzhi; Xia, Qiuju; Nian, Hai

doi:10.1186/s12864-020-07150-4

Cited by 16 publications

(29 citation statements)

References 77 publications

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“…Besides, the cis -elements in the promoter regions of the GmTALE genes were also investigated. Soybean is a worldwide economic crop that abundant in high-quality oil and protein [ 29 , 30 ], which is sensitive to the effects of abiotic stress and belongs to the group of crops that are less drought and saline tolerant [ 31 ]. Importantly, a recent study in poplar comprehensively analyzed the TALE gene family and turned out that 11 poplar TALE genes were responsive to saline stress [ 1 ].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Characterization of TALE Superfamily Genes in Soybean (Glycine max L.)

Wang

Yang

Gao

et al. 2021

IJMS

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The three-amino-acid-loop-extension (TALE) superfamily genes broadly existed in plants, which played important roles in plant growth, development and abiotic stress responses. In this study, we identified 68 Glycine max TALE (GmTALE) superfamily members. Phylogenetic analysis divided the GmTALE superfamily into the BEL1-like (BLH/BELL homeodomain) and the KNOX (KNOTTED-like homeodomain) subfamilies. Moreover, the KNOX subfamily could be further categorized into three clades (KNOX Class I, KNOX Class II and KNOX Class III). The GmTALE genes showed similarities in the gene structures in the same subfamily or clade, whose coding proteins exhibited analogous motif and conserved domain compositions. Besides, synteny analyses and evolutionary constraint evaluations of the TALE members among soybean and different species provided more clues for GmTALE superfamily evolution. The cis-element analyses in gene promoter regions and relevant gene expression profiling revealed different regulating roles of GmTALE genes during soybean plant development, saline and dehydration stresses. Genome-wide characterization, evolution, and expression profile analyses of GmTALE genes can pave the way for future gene functional research and facilitate their roles for applications in genetic improvement on soybean in saline and dehydration stresses.

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Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Characterization of TALE Superfamily Genes in Soybean (Glycine max L.)

Wang

Yang

Gao

et al. 2021

IJMS

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“…Sequencing-based genotyping is so robust that it can be used in a wide range of genetic studies, such as genome-wide association studies (GWAS), genomic selection (GS), diversity studies, and genome mapping, even without prior knowledge of the species [ 19 , 21 ]. QTL mapping using RAD-seq as a genotyping platform has been performed in various crops, including soybean [ 22 , 23 , 24 , 25 ], peanut [ 26 , 27 , 28 ], cowpea [ 29 ], bitter gourd [ 30 , 31 ], Chinese cabbage [ 32 ], alfalfa [ 33 ], sesame [ 34 ], foxtail millet [ 33 , 35 ], sorghum [ 36 ], and rice [ 37 , 38 ].…”

Section: Introductionmentioning

confidence: 99%

Genetic Mapping by Sequencing More Precisely Detects Loci Responsible for Anaerobic Germination Tolerance in Rice

Ignacio

Zaidem

Casal

et al. 2021

Plants

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Direct seeded rice (DSR) is a mainstay for planting rice in the Americas, and it is rapidly becoming more popular in Asia. It is essential to develop rice varieties that are suitable for this type of production system. ASD1, a landrace from India, possesses several traits desirable for direct-seeded fields, including tolerance to anaerobic germination (AG). To map the genetic basis of its tolerance, we examined a population of 200 F2:3 families derived from a cross between IR64 and ASD1 using the restriction site-associated DNA sequencing (RAD-seq) technology. This genotyping platform enabled the identification of 1921 single nucleotide polymorphism (SNP) markers to construct a high-resolution genetic linkage map with an average interval of 0.9 cM. Two significant quantitative trait loci (QTLs) were detected on chromosomes 7 and 9, qAG7 and qAG9, with LOD scores of 7.1 and 15.0 and R2 values of 15.1 and 29.4, respectively. Here, we obtained more precise locations of the QTLs than traditional simple sequence repeat and low-density SNP genotyping methods and may help further dissect the genetic factors of these QTLs.

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“…Photosynthesis is an important phenomenon in plants which is directly involved in yield formation, and it has been extensively studied in relation to high crop yield in plant breeding [1,2]. Chlorophyll is the paramount feature facilitating plants to captivate, transfer and convert light energy and performs an imperative function in the growth and development of plants [3,4]. Sustaining a high level of chlorophyll matter in leaves is an essential requirement to increase the photosynthetic activity [1,3].…”

Section: Introductionmentioning

confidence: 99%

“…Chlorophyll is the paramount feature facilitating plants to captivate, transfer and convert light energy and performs an imperative function in the growth and development of plants [3,4]. Sustaining a high level of chlorophyll matter in leaves is an essential requirement to increase the photosynthetic activity [1,3]. Up to a particular range, there is a positive correlation between chlorophyll level and photosynthetic rate and N utilization in plants, which directly specify the yield [1,[5][6][7].…”

Section: Introductionmentioning

confidence: 99%

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QTL Analysis for Chlorophyll Content in Strawberry (Fragaria × ananassa Duch.) Leaves

et al. 2021

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Chlorophyll is an important factor facilitating plants to capture, allocate and transforms light energy and plays a major role in yield formation. Strawberry is one of the most important fruit crops worldwide. Breeding strawberry for better light utilization by improving photosynthetic efficiency can improve the yield potential. In strawberry, genetic studies have been done for several traits, but no reports on the genetic mapping of chlorophyll content in leaves. In the present study, we used two independent F2 mapping populations (BS-F2 and BC-F2) and, Axiom 35 K strawberry chip and genotyping-by-sequencing derived single nucleotide polymorphisms based linkage maps to identify the quantitative trait loci (QTLs) controlling leaf chlorophyll content. SPAD values were used to estimate the leaf chlorophyll content of parental lines and F2 populations. A total of seven QTLs, including major and minor effects, common and specific to populations, were identified across the strawberry genome explaining phenotypic variation (R2) ranging from 1.4 to 26.4%. Candidate genes associated with the photosynthesis and chlorophyll content were inferred in commonly detected QTLs. This work thus provides not only information for novel loci controlling chlorophyll content in strawberry leaves but also forms the basis for future marker assisted breeding in strawberry to select the plants for required chlorophyll content.

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QTL mapping for soybean (Glycine max L.) leaf chlorophyll-content traits in a genotyped RIL population by using RAD-seq based high-density linkage map

Cited by 16 publications

References 77 publications

Genome-Wide Identification and Characterization of TALE Superfamily Genes in Soybean (Glycine max L.)

Genome-Wide Identification and Characterization of TALE Superfamily Genes in Soybean (Glycine max L.)

Genetic Mapping by Sequencing More Precisely Detects Loci Responsible for Anaerobic Germination Tolerance in Rice

QTL Analysis for Chlorophyll Content in Strawberry (Fragaria × ananassa Duch.) Leaves

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