+ Site Statistics
+ Search Articles
+ PDF Full Text Service
How our service works
Request PDF Full Text
+ Follow Us
Follow on Facebook
Follow on Twitter
Follow on LinkedIn
+ Subscribe to Site Feeds
Most Shared
PDF Full Text
+ Translate
+ Recently Requested

Characterizing Two Inter-specific Bin Maps for the Exploration of the QTLs/Genes that Confer Three Soybean Evolutionary Traits

Characterizing Two Inter-specific Bin Maps for the Exploration of the QTLs/Genes that Confer Three Soybean Evolutionary Traits

Frontiers in Plant Science 7: 1248

Annual wild soybean (Glycine soja Sieb. and Zucc.), the wild progenitor of the cultivated soybean [Glycine max (L.) Merr.], is valuable for improving the later. The construction of a linkage map is crucial for studying the genetic differentiation between these species, but marker density is the main factor limiting the accuracy of such a map. Recent advances in next-generation sequencing technologies allow for the generation of high-density linkage maps. Here, two sets of inter-specific recombinant inbred line populations, named NJIRNP and NJIR4P, composed of 284 and 161 lines, respectively, were generated from the same wild male parent, PI 342618B, and genotyped by restriction-site-associated DNA sequencing. Two linkage maps containing 5,728 and 4,354 bins were constructed based on 89,680 and 80,995 single nucleotide polymorphisms, spanning a total genetic distance of 2204.6 and 2136.7 cM, with an average distance of 0.4 and 0.5 cM between neighboring bins in NJRINP and NJRI4P, respectively. With the two maps, seven well-studied loci, B1 for seed bloom; G and I for seed coat color; E2, E3, qDTF16.1 and two linked FLOWERING LOCUS T for days to flowering, were detected. In addition, two SB and two DTF loci were newly identified in wild soybean. Using two high-density maps, the mapping resolution was enhanced, e.g., G was narrowed to a region of 0.4 Mb on chromosome 1, encompassing 54 gene models, among which only Glyma01g40590 was predicted to be involved in anthocyanin accumulation, and its interaction with I was verified in both populations. In addition, five genes, Glyma16g03030, orthologous to Arabidopsis Phytochrome A (PHYA); Glyma13g28810, Glyma13g29920, and Glyma13g30710 predicted to encode the APETALA 2 (AP2) domain; and Glyma02g00300, involved in response to red or far red light, might be candidate DTF genes. Our results demonstrate that RAD-seq is a cost-effective approach for constructing high-density and high-quality bin maps that can be used to map QTLs/genes into such small enough regions that their candidate genes can be predicted.

Please choose payment method:

(PDF emailed within 0-6 h: $19.90)

Accession: 057391535

Download citation: RISBibTeXText

PMID: 27602037

DOI: 10.3389/fpls.2016.01248

Related references

Alignment of genetic maps and QTLs between inter- and intra-specific sorghum populations. Tag. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik 112(7): 1295-1305, 2006

Mapping QTLs for traits related to phenology, morphology and yield components in an inter-specific Gossypium hirsutum×G barbadense cotton RIL population. Field Crops Research 144: 256-267, 2013

Identification of QTLs for seed and pod traits in soybean and analysis for additive effects and epistatic effects of QTLs among multiple environments. Molecular Genetics and Genomics 288(12): 651-667, 2013

Meta-analysis of Yield QTLs Derived from Inter-specific Crosses of Rice Reveals Consensus Regions and Candidate Genes. Plant Molecular Biology Reporter 29(3): 663-680, 2011

Construction of a high-density genetic map and mapping of QTLs for soybean (Glycine max) agronomic and seed quality traits by specific length amplified fragment sequencing. Bmc Genomics 19(1): 641, 2018

Characterizing the Relation Between Expression QTLs and Complex Traits: Exploring the Role of Tissue Specificity. Behavior Genetics 48(5): 374-385, 2018

QTLs mapping of some agronomic traits of soybean. Yi Chuan Xue Bao 28(10): 947-955, 2001

The application of high-density genetic maps of rye for the detection of QTLs controlling morphological traits. Journal of Applied Genetics 55(1): 15-26, 2014

Multiple genes confer resistance to soybean mosaic virus in the soybean cultivar Hwangkeum. Plant Genetic Resources 12(S1): S41-S44, 2014

Comparison of molecular linkage maps and QTLs for morphological traits in two reciprocal backcross populations of rice. Molecules and Cells 25(3): 417-427, 2008

Mapping of QTLs associated with biological nitrogen fixation traits in soybean. Hereditas 150(2-3): 17-25, 2013

Analysis of QTLs for Root Traits at Seedling Stage in Soybean. Acta Agronomica Sinica 37(7), 2011

Molecular characterization of NBS-LRR genes in the soybean Rsv3 locus reveals several divergent alleles that likely confer resistance to the soybean mosaic virus. Tag. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik 131(2): 253-265, 2018

The promoter regions of two muscle specific genes contain dna sequences which confer tissue and stage specific expression of chimeric genes in transfected myogenic cells. Emerson, C Et Al (Ed ) Ucla (University Of California-Los Angeles) Symposia on Molecular And Cellular Biology New Series, Vol 29 Molecular Biology Of Muscle Development; Roche-Ucla Symposium, Park City, Utah, Usa, Mar 15-22, 1985 Xxx+957p Alan R Liss, Inc : New York, N Y , Usa Illus 559-574, 1986

Arabidopsis genes, AtNPR1, AtTGA2 and AtPR-5, confer partial resistance to soybean cyst nematode (Heterodera glycines) when overexpressed in transgenic soybean roots. Bmc Plant Biology 14: 96, 2014