Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2017;37(12):143.
doi: 10.1007/s11032-017-0737-2. Epub 2017 Nov 4.

Combining drought and submergence tolerance in rice: marker-assisted breeding and QTL combination effects

Shalabh Dixit  1 , Anshuman Singh  1   2 , Nitika Sandhu  1 , Aditi Bhandari  1 , Prashant Vikram  1   3 , Arvind Kumar  1
Affiliations

Combining drought and submergence tolerance in rice: marker-assisted breeding and QTL combination effects

Shalabh Dixit et al. Mol Breed. 2017.

Abstract

TDK1 is a popular rice variety from the Lao PDR. Originally developed for irrigated conditions, this variety suffers a high decline in yield under drought conditions. Studies have identified three quantitative trait loci (QTLs) for grain yield under drought conditions, qDTY3.1 , qDTY6.1 , and qDTY6.2 , that show a high effect in the background of this variety. We report here the pyramiding of these three QTLs with SUB1 that provides 2-3 weeks of tolerance to complete submergence, with the aim to develop drought- and submergence-tolerant near-isogenic lines (NILs) of TDK1. We used a tandem approach that combined marker-assisted backcross breeding with phenotypic selection to develop NILs with high yield under drought stress and non-stress conditions and preferred grain quality. The effect of different QTL combinations on yield and yield-related traits under drought stress and non-stress conditions is also reported. Our results show qDTY3.1 to be the largest and most consistent QTL affecting yield under drought conditions, followed by qDTY6.1 and qDTY6.2 , respectively. QTL class analysis also showed that lines with a combination of qDTY3.1 and qDTY6.1 consistently showed a higher tolerance to drought than those in which one of these QTLs was missing. In countries such as Lao PDR, where large areas under rice cultivation suffer vegetative-stage submergence and reproductive-stage drought, these lines could ensure yield stability. These lines can also serve as valuable genetic material to be used for further breeding of high-yielding, drought- and submergence-tolerant varieties in local breeding programs.

Keywords: Drought; MABB; QTL; Rice; Submergence; Yield.

PubMed Disclaimer

Figures

Fig. 1
Fig. 1
Effect of combinations of qDTY 3.1, qDTY 6.1, and qDTY 6.2, 3 quantitative trait loci (QTLs) identified in the background of rice variety TDK1 with large effects on grain yield under drought conditions, on a days to flowering, b grain yield (GY) and c plant height under drought stress and non-stress conditions. +++ class refers to lines with all 3 QTLs, +−+ class refers to lines with qDTY 3.1 and qDTY 6.2, −++ class refers to lines with qDTY 6.1 and qDTY 6.2, −−+ class refers to lines with qDTY 6.2 only; TDK1 (−−−) is taken as the baseline for lines without any QTLs. Lines with three QTLs showed the highest yield advantage under drought conditions and earlier flowering and maintained plant height. qDTY 3.1 led to a yield penalty under non-stress conditions
Fig. 2
Fig. 2
Vann diagram showing the proportion of lines with tolerance of drought and submergence and with high yield from the set of lines screened in the dry season of 2015. Numbers in the circles refer to lines with one of the three traits while those in the intersecting areas show the lines with two or all three traits. In total, 29 lines showed the presence of a combination of two or three traits
See this image and copyright information in PMC

References

    1. Bernier J, Kumar A, Venuprasad R, Spaner D, Atlin GN. A large-effect QTL for grain yield under reproductive-stage drought stress in upland rice. Crop Sci. 2007;47:507–516. doi: 10.2135/cropsci2006.07.0495. - DOI
    1. Dilley M, Chen RS, Deichmann U, Lerner-Lam AL, Arnold M, Agwe J, Buys P, Kjekstad O, Lyon B, Yetman G (2005) Natural disaster hotspots: a global risk analysis synthesis report. Center for Hazard and Risk Research, Columbia University, New York
    1. Dixit S, Biswal AK, Min A, Henry A, Oane RH, Raorane ML, Longkumer T, Pabuayon IM, Mutte SK, Vardarajan AR, Miro B, Govindan G, Albano-Enriquez B, Pueffeld M, Sreenivasulu N, Slamet-Loedin I, Sundarvelpandian K, Tsai Y-C, Raghuvanshi S, Hsing YC, Kumar A, Kohli A (2015a) Action of multiple intra-QTL genes concerted around a co-localized transcription factor underpins a large effect QTL. Nature Sci Rep 5:15183 - PMC - PubMed
    1. Dixit S, Grondin A, Lee C-R, Henry A, Olds T-M, Kumar A (2015b) Understanding rice adaptation to varying agro-ecosystems: trait interactions and quantitative trait loci. BMC Genet 16:86. 10.1186/s12863-015-0249-1 - PMC - PubMed
    1. Dixit S, Huang BE, Sta Cruz MT, Maturan PT, Ontoy JCE, Kumar A (2014a) QTLs for tolerance of drought and breeding for tolerance of Abiotic and biotic stress: an integrated approach. PLoS One 9(10):e109574 - PMC - PubMed

LinkOut - more resources