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Identification of novel QTL governing root architectural traits in an interspecific soybean population.

Manavalan LP, Prince SJ, Musket TA, Chaky J, Deshmukh R, Vuong TD, Song L, Cregan PB, Nelson JC, Shannon JG, Specht JE, Nguyen HT - PLoS ONE (2015)

Bottom Line: Dunbar (PI 552538) and wild G. soja (PI 326582A) exhibited significant differences in root architecture and root-related traits.This QTL region was found to control various shoot- and root-related traits across soybean genetic backgrounds.It appears that the marker interval Satt315-I locus on chromosome 8 contain an essential QTL contributing to early root and shoot growth in soybean.

View Article: PubMed Central - PubMed

Affiliation: Division of Plant Sciences, University of Missouri, Columbia, Missouri, United States of America.

ABSTRACT
Cultivated soybean (Glycine max L.) cv. Dunbar (PI 552538) and wild G. soja (PI 326582A) exhibited significant differences in root architecture and root-related traits. In this study, phenotypic variability for root traits among 251 BC2F5 backcross inbred lines (BILs) developed from the cross Dunbar/PI 326582A were identified. The root systems of the parents and BILs were evaluated in controlled environmental conditions using a cone system at seedling stage. The G. max parent Dunbar contributed phenotypically favorable alleles at a major quantitative trait locus on chromosome 8 (Satt315-I locus) that governed root traits (tap root length and lateral root number) and shoot length. This QTL accounted for >10% of the phenotypic variation of both tap root and shoot length. This QTL region was found to control various shoot- and root-related traits across soybean genetic backgrounds. Within the confidence interval of this region, eleven transcription factors (TFs) were identified. Based on RNA sequencing and Affymetrix expression data, key TFs including MYB, AP2-EREBP and bZIP TFs were identified in this QTL interval with high expression in roots and nodules. The backcross inbred lines with different parental allelic combination showed different expression pattern for six transcription factors selected based on their expression pattern in root tissues. It appears that the marker interval Satt315-I locus on chromosome 8 contain an essential QTL contributing to early root and shoot growth in soybean.

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QTLs for root and shoot traits identified on chromosome 8 using inclusive composite interval mapping approach.
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pone.0120490.g004: QTLs for root and shoot traits identified on chromosome 8 using inclusive composite interval mapping approach.

Mentions: The use of interval mapping (IM) applied to the six measured shoot and root trait means led to the identification of five QTLs with their permutation-generated LOD score criteria for QTL significance declaration (Table 3). QTLs controlling TRL, LRN, SL and SDW were mapped on chromosome 8 within a confidence interval of 15 cM between Satt315 and the I locus (Table 3). The LOD score peak of each of these four QTLs exceeded 3.0 and accounted for from 4.6 to 10.3 percent of phenotypic variation (Table 3, Fig. 4). With respect to the significant QTLs identified on chromosome 8 for TRL, LRN, SL and SDW, the allele conferring greater length and number was contributed by the cultivated soybean parent, Dunbar (Table 3). The QTL analysis also identified a SDW QTL on chromosome 12 (Table 3) and no significant QTL with LOD score >3.0 was detected for RDW. However, the interaction analysis identified QTLs for RDW involving five chromosomal regions with (Chromosomes 8 and 12) without (Chromosomes 1, 6, and 10) main effects, with positive alleles contributed by Dunbar. Both these chromosomal regions on chromosomes 8 and 12 have additive effects on RDW individually and have negative effect on interaction (Table 4). Thus the RDW QTL in this mapping population might be controlled by polygenes or QTLs with minor effects. However, the similar chromosomal regions of chromosomes 8 and 12 showed higher additive effects for the shoot length trait.


Identification of novel QTL governing root architectural traits in an interspecific soybean population.

Manavalan LP, Prince SJ, Musket TA, Chaky J, Deshmukh R, Vuong TD, Song L, Cregan PB, Nelson JC, Shannon JG, Specht JE, Nguyen HT - PLoS ONE (2015)

QTLs for root and shoot traits identified on chromosome 8 using inclusive composite interval mapping approach.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4355624&req=5

pone.0120490.g004: QTLs for root and shoot traits identified on chromosome 8 using inclusive composite interval mapping approach.
Mentions: The use of interval mapping (IM) applied to the six measured shoot and root trait means led to the identification of five QTLs with their permutation-generated LOD score criteria for QTL significance declaration (Table 3). QTLs controlling TRL, LRN, SL and SDW were mapped on chromosome 8 within a confidence interval of 15 cM between Satt315 and the I locus (Table 3). The LOD score peak of each of these four QTLs exceeded 3.0 and accounted for from 4.6 to 10.3 percent of phenotypic variation (Table 3, Fig. 4). With respect to the significant QTLs identified on chromosome 8 for TRL, LRN, SL and SDW, the allele conferring greater length and number was contributed by the cultivated soybean parent, Dunbar (Table 3). The QTL analysis also identified a SDW QTL on chromosome 12 (Table 3) and no significant QTL with LOD score >3.0 was detected for RDW. However, the interaction analysis identified QTLs for RDW involving five chromosomal regions with (Chromosomes 8 and 12) without (Chromosomes 1, 6, and 10) main effects, with positive alleles contributed by Dunbar. Both these chromosomal regions on chromosomes 8 and 12 have additive effects on RDW individually and have negative effect on interaction (Table 4). Thus the RDW QTL in this mapping population might be controlled by polygenes or QTLs with minor effects. However, the similar chromosomal regions of chromosomes 8 and 12 showed higher additive effects for the shoot length trait.

Bottom Line: Dunbar (PI 552538) and wild G. soja (PI 326582A) exhibited significant differences in root architecture and root-related traits.This QTL region was found to control various shoot- and root-related traits across soybean genetic backgrounds.It appears that the marker interval Satt315-I locus on chromosome 8 contain an essential QTL contributing to early root and shoot growth in soybean.

View Article: PubMed Central - PubMed

Affiliation: Division of Plant Sciences, University of Missouri, Columbia, Missouri, United States of America.

ABSTRACT
Cultivated soybean (Glycine max L.) cv. Dunbar (PI 552538) and wild G. soja (PI 326582A) exhibited significant differences in root architecture and root-related traits. In this study, phenotypic variability for root traits among 251 BC2F5 backcross inbred lines (BILs) developed from the cross Dunbar/PI 326582A were identified. The root systems of the parents and BILs were evaluated in controlled environmental conditions using a cone system at seedling stage. The G. max parent Dunbar contributed phenotypically favorable alleles at a major quantitative trait locus on chromosome 8 (Satt315-I locus) that governed root traits (tap root length and lateral root number) and shoot length. This QTL accounted for >10% of the phenotypic variation of both tap root and shoot length. This QTL region was found to control various shoot- and root-related traits across soybean genetic backgrounds. Within the confidence interval of this region, eleven transcription factors (TFs) were identified. Based on RNA sequencing and Affymetrix expression data, key TFs including MYB, AP2-EREBP and bZIP TFs were identified in this QTL interval with high expression in roots and nodules. The backcross inbred lines with different parental allelic combination showed different expression pattern for six transcription factors selected based on their expression pattern in root tissues. It appears that the marker interval Satt315-I locus on chromosome 8 contain an essential QTL contributing to early root and shoot growth in soybean.

Show MeSH