Main effect QTLs associated with arsenic phyto-toxicity tolerance at seedling stage in rice (Oryza sativa L.)

Syed, Md. Abu; Iftekharuddaula, K. M.; Mian, M. A. Khaleque; Rasul, M. G.; Rahmam, G. K. M. Mustafizur; Panaullah, G. M.; Lauren, J. G.; Duxbury, J. M.; Biswas, P.

doi:10.1007/s10681-016-1683-5

“…Therefore, an alternative approach is to examine seedling characteristics under controlled conditions using hydroponic culture, which has several advantages over field and other conventional techniques, including: (i) ease of investigation of seedling characteristics (as compared with field experiment), (ii) exclusion of soil and environment interference to increase measurement repeatability, (iii) investigation of large numbers of lines in short period of time, and (iv) precise control of the concentration of nutrient concentration [ 18 ]. At present, this method has been widely used in rice [ 19 – 21 ], maize [ 15 , 22 , 23 ] and wheat [ 16 , 24 , 25 ], and many QTLs have been detected at various water and nutrient regimes. Some researchers have used this method to identify QTLs associated with salt tolerance [ 3 , 26 ], waterlogging tolerance [ 27 – 29 ] and nitrogen stress tolerance [ 30 ] in barley.…”

Section: Introductionmentioning

confidence: 99%

Detection of QTLs for seedling characteristics in barley (Hordeum vulgare L.) grown under hydroponic culture condition

Wang

¹

,

Sun

²

,

Ren

³

et al. 2017

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BackgroundSeedling characteristics play significant roles in the growth and development of barley (Hordeum vulgare L.), including stable stand establishment, water and nutrients uptake, biotic resistance and abiotic stresses, and can influence yield and quality. However, the genetic mechanisms underlying seedling characteristics in barley are largely unknown and little research has been done. In the present work, 21 seedling-related characteristics are assessed in a barley double haploid (DH) population, grown under hydroponic conditions. Of them, leaf age (LAG), shoot height (SH), maximum root length (MRL), main root number (MRN) and seedling fresh weight (SFW) were investigated at the 13th, 20th, 27th, and 34th day after germination. The objectives were to identify quantitative trait loci (QTLs) underlying these seedling characteristics using a high-density linkage map and to reveal the QTL expression pattern by comparing the QTLs among four different seedling growth stages.ResultsA total of 70 QTLs were distributed over all chromosomes except 4H, and, individually, accounted for 5.01%–77.78% of phenotypic variation. Out of the 70 detected QTLs, 23 showed a major effect on 14 seedling-related characteristics. Ten co-localized chromosomal regions on 2H (five regions), 3H (two regions) and 7H (three regions) involved 39 QTLs (55.71%), each simultaneously influenced more than one trait. Meanwhile, 9 co-localized genomic regions involving 22 QTLs for five seedling characteristics (LAG, SH, MRL, MRN and SFW) at the 13th, 20th, 27th and 34th day-old seedling were common for two or more growth stages of seedling. QTL in the vicinity of Vrs1 locus on chromosome 2H with the favorable alleles from Huadamai 6 was found to have the largest main effects on multiple seedling-related traits.ConclusionsSix QTL cluster regions associated with 16 seedling-related characteristics were observed on chromosome 2H, 3H and 7H. The majority of the 29 regions identified for five seedling characteristics were selectively expressed at different developmental stages. The genetic effects of 9 consecutive expression regions displayed different developmental influences at different developmental stages. These findings enhanced our understanding of a genetic basis underlying seedling characteristics in barley. Some QTLs detected here could be used for marker-assisted selection (MAS) in barley breeding.Electronic supplementary materialThe online version of this article (10.1186/s12863-017-0562-y) contains supplementary material, which is available to authorized users.

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“…On the other hand, monomorphism of the markers reflected genetic closeness of the cultivars. In closely related cultivars, these phenomena are frequent and are reported in many previous studies [22,[24][25][26]. However, comparatively high average PIC value (0.758) with a range from 0.511 to 0.861 that was calculated based on 51 polymorphic makers indicated that the cultivars are much diverged.…”

Section: Discussionmentioning

confidence: 71%

Molecular Characterization of Parental Lines of Rice Aiming to Address High Yield and Nutritional Quality Under Drought and Cold Stress Condition

Das

¹

,

Biswas

²

2017

Current Research in Agricultural Sciences

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Article HistoryAbiotic stresses limit crop growth at different growth stages resulting low yield of rice. Molecular characterization of parental materials gives precise information on the extent of genetic diversity exists between them. A set of 60 SSRs randomly distributed over 12 chromosomes were used to analyze eight cultivars intend to be used as parent in breeding programs to address cold and drought tolerance, and nutritional quality of rice. A total of 300 alleles were detected across the cultivars for 51 polymophic markers with 5.88 alleles per loci. On average 30.6% of the genotypes shared a common allele at any given locus. UPGMA cluster analysis showed that 67% common alleles were shared by the cultivars. The cultivars were clearly grouped into two distinct clusters at 67.0% genetic similarity. Hbj. BVI showing high tolerance to cold stress at seedling stage differed from cold susceptible BR1, BRRI dhan28 and BRRI dhan29 by 33% alleles while BR18 that showed moderately cold tolerance differed by 29.0 -29.9% alleles which indicated that only 3-4% alleles difference caused higher cold tolerance in Hbj. BVI. The moderate genetic distance between cold tolerant Hbj. BVI and high yielding BRRI dhan28 and BRRI dhan29 indicated that there is higher possibility of obtaining high yielding cold tolerant segregants from the crosses between them. On the other hand, Kalobokri, which had 31.7 mg zinc a kilogram of polished rice differed by 33.0% alleles from the drought tolerant rainfed low varieties BRRI dhan56 and BRRI dhan57 having moderate level of zinc (~20 mg/kg), which also indicated that crosses between them might produce progenies with higher nutritional quality under drought environment. Contribution/ Originality:This study is one of the few studies which have investigated the genetic distance between the parental lines that are intended to be used in the breeding program to address abiotic stresses, like drought and cold tolerance with high yield potential and enhanced nutritional quality, particularly zinc content in rice.

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“…On the other hand, monomorphism of the markers reflected genetic closeness of the cultivars. In closely related cultivars, these phenomena are frequent and are reported in many previous studies [22,[24][25][26]. However, comparatively high average PIC value (0.758) with a range from 0.511 to 0.861 that was calculated based on 51 polymorphic makers indicated that the cultivars are much diverged.…”

Section: Discussionmentioning

confidence: 72%

Untitled

2017

Current Research in Agricultural Sciences

0

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Article HistoryAbiotic stresses limit crop growth at different growth stages resulting low yield of rice. Molecular characterization of parental materials gives precise information on the extent of genetic diversity exists between them. A set of 60 SSRs randomly distributed over 12 chromosomes were used to analyze eight cultivars intend to be used as parent in breeding programs to address cold and drought tolerance, and nutritional quality of rice. A total of 300 alleles were detected across the cultivars for 51 polymophic markers with 5.88 alleles per loci. On average 30.6% of the genotypes shared a common allele at any given locus. UPGMA cluster analysis showed that 67% common alleles were shared by the cultivars. The cultivars were clearly grouped into two distinct clusters at 67.0% genetic similarity. Hbj. BVI showing high tolerance to cold stress at seedling stage differed from cold susceptible BR1, BRRI dhan28 and BRRI dhan29 by 33% alleles while BR18 that showed moderately cold tolerance differed by 29.0 -29.9% alleles which indicated that only 3-4% alleles difference caused higher cold tolerance in Hbj. BVI. The moderate genetic distance between cold tolerant Hbj. BVI and high yielding BRRI dhan28 and BRRI dhan29 indicated that there is higher possibility of obtaining high yielding cold tolerant segregants from the crosses between them. On the other hand, Kalobokri, which had 31.7 mg zinc a kilogram of polished rice differed by 33.0% alleles from the drought tolerant rainfed low varieties BRRI dhan56 and BRRI dhan57 having moderate level of zinc (~20 mg/kg), which also indicated that crosses between them might produce progenies with higher nutritional quality under drought environment. Contribution/ Originality:This study is one of the few studies which have investigated the genetic distance between the parental lines that are intended to be used in the breeding program to address abiotic stresses, like drought and cold tolerance with high yield potential and enhanced nutritional quality, particularly zinc content in rice.

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Main effect QTLs associated with arsenic phyto-toxicity tolerance at seedling stage in rice (Oryza sativa L.)

Cited by 22 publications

References 46 publications

Detection of QTLs for seedling characteristics in barley (Hordeum vulgare L.) grown under hydroponic culture condition

Detection of QTLs for seedling characteristics in barley (Hordeum vulgare L.) grown under hydroponic culture condition

Molecular Characterization of Parental Lines of Rice Aiming to Address High Yield and Nutritional Quality Under Drought and Cold Stress Condition

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