Genetic analysis of yield and agronomic traits under reproductive-stage drought stress in rice using a high-resolution linkage map

Bhattarai, Uttam; Subudhi, Prasanta K.

doi:10.1016/j.gene.2018.05.086

Cited by 14 publications

(18 citation statements)

References 32 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The marker SNPID280 associated with QTLs qGY1.1 and qPN1.1 on chromosome 1 (42.32 Mbp) for grain yield and panicle number, respectively, under drought, in our study was co-localized with the known grain yield QTLs reported earlier [15,16]. The chromosomal region harboring qGY1.1 also harbors the sd1 gene for semi-dwarf plant height, suggesting the relevance of the 'green revolution gene' in drought stress response in rice [43,44].…”

Section: Discussionsupporting

confidence: 69%

“…The grain yield QTL, qGY7.1 (RM 10-RM47) identified on chromosome 7 in this study spanned qYP7.2 (RM1377-RM1279), the QTL reported for grain yield per plant under drought [45]. Chromosome 7 was also found to contain a QTL for the yield attributing trait, spikelet fertility from a greenhouse drought study involving an independent set of population from the same parents [16]. The QTL on chromosome 7, qGY7.1 identified in this study was not discovered in the Cocodrie × Vandana population that we reported earlier [25].…”

Section: Discussionmentioning

confidence: 56%

“…Earlier studies suggested direct selection for grain yield as the most effective approach to breeding improved drought-resistant rice varieties [19,25,36]. Many previous studies have identified QTLs for grain yield traits under both vegetative-and reproductive-stage drought stress through selective/genome-wide genotyping [12,[14][15][16][17][18]25,[37][38][39][40]. The present study was undertaken to identify genomic regions and the genes that govern rice yield traits under drought in elite US rice germplasm.…”

Section: Discussionmentioning

confidence: 99%

“…The QTL qGY11.1 on chromosome 11 (SNPID452-SNPID202) that explained 7.86% of the variance for grain yield has not been reported earlier for grain yield under drought. However, a QTL qSF11.19 (19.37 Mbp) [16] identified to control spikelet fertility under drought stress is located~4 Mbp apart from the SNPID452 (23.9 Mbp). On the other hand, a QTL for deep root length under drought was observed between 9.0 Mbp (RM202) and 18.4 Mbp (RM229) on chromosome 11 [51] in the proximity of qGY11.1.…”

Section: Discussionmentioning

confidence: 99%

“…The qDTY12.1 on chromosome 12 was the first QTL reported for grain yield under drought that is consistent over multiple generations [12], and it has been used to develop drought-resistant upland and lowland rice with increased grain yield [13,14]. The QTL qDTY1.1 on chromosome 1 was identified where drought-resistant varieties Nagina 22 [15,16] and Dhagaddeshi [17] contributed the favorable allele for GYD. Two other QTLs, qDTY2.3 [18,19] and qDTY3.2 [20], from the variety Vandana interact with qDTY12.1 to enhance yield and harvest index under severe upland and lowland drought conditions [21].…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

Genetic Mapping Identifies Consistent Quantitative Trait Loci for Yield Traits of Rice under Greenhouse Drought Conditions

Baisakh

Yabes

Gutierrez

et al. 2020

Genes

View full text Add to dashboard Cite

Improving drought resistance in crops is imperative under the prevailing erratic rainfall patterns. Drought affects the growth and yield of most modern rice varieties. Recent breeding efforts aim to incorporate drought resistance traits in rice varieties that can be suitable under alternative irrigation schemes, such as in a (semi)aerobic system, as row (furrow-irrigated) rice. The identification of quantitative trait loci (QTLs) controlling grain yield, the most important trait with high selection efficiency, can lead to the identification of markers to facilitate marker-assisted breeding of drought-resistant rice. Here, we report grain yield QTLs under greenhouse drought using an F 2:3 population derived from Cocodrie (drought sensitive) × Nagina 22 (N22) (drought tolerant). Eight QTLs were identified for yield traits under drought. Grain yield QTL under drought on chromosome 1 (phenotypic variance explained (PVE) = 11.15%) co-localized with the only QTL for panicle number (PVE = 37.7%). The drought-tolerant parent N22 contributed the favorable alleles for all QTLs except qGN3.2 and qGN5.1 for grain number per panicle. Stress-responsive transcription factors, such as ethylene response factor, WD40 domain protein, zinc finger protein, and genes involved in lipid/sugar metabolism were linked to the QTLs, suggesting their possible role in drought tolerance mechanism of N22 in the background of Cocodrie, contributing to higher yield under drought.

show abstract

Section: Discussionsupporting

confidence: 69%

Section: Discussionmentioning

confidence: 56%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Genetic Mapping Identifies Consistent Quantitative Trait Loci for Yield Traits of Rice under Greenhouse Drought Conditions

Baisakh

Yabes

Gutierrez

et al. 2020

Genes

View full text Add to dashboard Cite

show abstract

Quantitative trait loci, candidate genes, and breeding lines to improve salt tolerance at the flowering and seedling stages in rice

Pruthi

Chapagain

Coronejo

et al. 2022

Food and Energy Security

View full text Add to dashboard Cite

Salinity is a major environmental constraint that limits growth and productivity of rice all over the world. Although rice plants are vulnerable to salt stress at both seedling and flowering stages, genetic dissection of salt tolerance at the flowering stage is challenging due to non‐uniformity of stress application at the appropriate growth stage. The present study was conducted to identify quantitative trait loci (QTLs) and candidate genes associated with the flowering stage salt tolerance and compare with those associated with the seedling stage using a high‐resolution genetic map. A population of advanced generation introgression lines with uniform flowering time was evaluated for salt tolerance at the seedling and flowering stages. A genetic map was constructed using 14,230 polymorphic single nucleotide polymorphism markers between donor parents (TCCP and FL478) and the recurrent parent (RP) (Jupiter). Seventeen and 28 QTLs were identified for traits associated with salt tolerance at the seedling and flowering stage, respectively. Important candidate genes present in the flowering stage salt responsive QTL regions were OsHAK13, OsCYP21‐4, GIF1, and OsRGG20, whereas the seedling stage QTL intervals harbored genes such OsHAK20, STRK1, and OsMADS25. Gene expression analysis revealed upregulation of OsHAK13 and OsCYP21‐4 in TCCP, 3 days after exposure to salt stress at the flowering stage. Similarly, expression of OsHAK20, STRK1, and OsMADS25 was highly upregulated in TCCP under salt stress at the seedling stage. Due to differences in genetic control of salt tolerance at both seedling and flowering stages, stacking of genes/QTLs for salt tolerance at both stages will be needed. Since some beneficial QTLs were also contributed by the RP, emphasis should be on targeting the desirable QTLs from donors while retaining the beneficial QTLs of the RP to improve salinity tolerance in rice using marker‐assisted selection.

show abstract

Breeding Efforts for Crop Productivity in Abiotic Stress Environment

Choudhary¹,

Get²,

Tripathi³

et al. 2022

Augmenting Crop Productivity in Stress Environment

View full text Add to dashboard Cite

Genetic analysis of yield and agronomic traits under reproductive-stage drought stress in rice using a high-resolution linkage map

Cited by 14 publications

References 32 publications

Genetic Mapping Identifies Consistent Quantitative Trait Loci for Yield Traits of Rice under Greenhouse Drought Conditions

Genetic Mapping Identifies Consistent Quantitative Trait Loci for Yield Traits of Rice under Greenhouse Drought Conditions

Quantitative trait loci, candidate genes, and breeding lines to improve salt tolerance at the flowering and seedling stages in rice

Breeding Efforts for Crop Productivity in Abiotic Stress Environment

Contact Info

Product

Resources

About