Marker-Assisted Backcross Breeding for Improvement of Submergence Tolerance and Grain Yield in the Popular Rice Variety, ‘Maudamani’

2021 ◽  
Author(s):  
Elssa Pandit ◽  
Swapnil Pawar ◽  
sharat Kumar pradhan
Keyword(s):  
Grain Yield ◽  
Rice Variety ◽  
Yield Component ◽  
Submergence Tolerance ◽  
Backcross Generation ◽  
Submergence Stress ◽  
Genome Content ◽  
Backcross Breeding ◽  
Marker Assisted Backcross Breeding ◽  
Recipient Parent

Abstract Background: Submergence stress due to flash flood reduces rice yield drastically in sensitive varieties. Maudamani is a high yielding popular rice variety but highly susceptible to submergence stress. The Sub1 and yield component QTL, GW5 were transferred into the popular high yielding variety for enhancing submergence tolerance and yield. Methods: Sub1 and GW5 QTLs were transferred into Maudamani variety by adopting marker-assisted backcross breeding method. The target QTLs were selected by foreground selection in each backcross generation progenies to track the target QTLs. Recipient parent’s genome recovery was accelerated by adopting background selection in each backcross generation progenies carrying the target QTLs. Results: The two target QTLs were tracked in each backcross generation progenies by employing the tightly linked and direct markers. Background screening was performed in each backcross generation progenies carrying the target QTLs by using 57 background markers for enhancing the recovery of recipient parent’s genome content. The selected progenies containing highest genome recovery of the parent was hybridized with recipient parent, Maudamani. Finally, the selected BC3F1 plant containing highest recipient parent genome content and the two target QTLs was self-pollinated. In BC3F2 generation, two QTLs, Sub1 and GW5 along with recipient parent’s yield component QTLs, OsSPL14, Gn1a and SCM2 were tracked for their homozygous state in the progenies. Amongst the developed pyramided lines, six lines showed tolerance to submergence for 14 days and also exhibited higher grain yield than both the parents. The pyramided lines, MSS 607-116-541-117 and MSS 607-116-541-436 produced >9 t/ha grain yield showing an advantage of >5% over the popular recipient variety. Few pyramided lines were similar in appearance and quality traits with the recipient parent. Conclusion: The pyramided lines will be useful as potential donors for the QTLs Sub1+ OsSPL14+ Gn1a + GW5 + SCM2 and also as cultivars.

scholarly journals Marker-Assisted Backcross Breeding for Improvement of Submergence Tolerance and Grain Yield in the Popular Rice Variety ‘Maudamani’

Agronomy ◽  
2021 ◽  
Vol 11 (7) ◽  
pp. 1263
Author(s):  
Elssa Pandit ◽  
Swapnil Pawar ◽  
Saumya Ranjan Barik ◽  
Shakti Prakash Mohanty ◽  
Jitendriya Meher ◽  
...  
Keyword(s):  
Grain Yield ◽  
Rice Variety ◽  
Yield Component ◽  
Submergence Tolerance ◽  
Breeding Method ◽  
Submergence Stress ◽  
Backcross Breeding ◽  
Grain Width ◽  
Marker Assisted Backcross Breeding ◽  
Recipient Parent

Submergence stress due to flash floods reduces rice yield drastically in sensitive varieties. Maudamani is a high yielding popular rice variety but is highly susceptible to submergence stress. The selection of progenies carrying Sub1 and GW5 (wide-grain) enhanced the submergence stress tolerance and grain yield of theMaudamani variety by following the marker-assisted backcross breeding method. Foreground screening detected 14 BC1F1, 17 BC2F1, and 12 BC3F1 backcross progenies that carried the target QTLs for submergence tolerance and grain width. Background screening was performed in the progenies carrying the target QTL and enhanced the recovery of a recipient parent’s genome by upto 96.875% in the BC3 pyramided line. The BC3F1 plant containing the highest recipient parent genome content and the target QTLs was self-pollinated. In BC3F2 generation, the target QTLs the Sub1 and GW5 (wide-grain) alleles and recipient parent’s yield component QTL OsSPL14 were tracked for homozygous states in the progenies. Seven pyramided lines showed tolerance to submergence for 14 days and higher grain yield than both the parents. The pyramided lines were similar to the recipient parent for the majority of the studied morphological and quality traits. The pyramided lines are useful as cultivars and can serve as potential donors for transfer of Sub1, OsSPL14, Gn1a, GW5 (wide-grain), and SCM2 QTLs.

scholarly journals Introgression of submergence tolerance into CO 43, a popular rice variety of India, through marker-assisted backcross breeding

2018 ◽  
Vol 54 (No. 3) ◽  
pp. 101-108 ◽  
Author(s):  
Rahman Hifzur ◽  
Dakshinamurthi Vijayalakshmi ◽  
Ramasamy Sasikala ◽  
Manickam Sudha ◽  
Kaliyaperumal Ashok Kumar ◽  
...  
Keyword(s):  
Rice Variety ◽  
Recurrent Parent ◽  
South East Asia ◽  
Submergence Tolerance ◽  
Early Generation ◽  
Rice Varieties ◽  
Major Threat ◽  
Backcross Breeding ◽  
Marker Assisted Backcrossing ◽  
Marker Assisted Backcross Breeding

Submergence is a major threat in rice growing areas of South and South-East Asia. Identification of a major QTL, Sub1 and advancements in marker-assisted backcrossing strategy enabled breeders to develop submergence tolerant versions of popular rice cultivars. In the present study, a marker-assisted backcross breeding (MABB) approach was used to introgress the Sub1 locus from the tolerant FR13A variety into CO 43, one of the popular rice varieties of southern India. Evaluation of early generation segregating progenies derived from the cross of CO 43 and FR13A revealed the introgression of Sub1, leading to increased tolerance to submergence and better revival ability after it. Genotyping and phenotyping of BC<sub>3</sub>F<sub>3</sub> generation resulted in elite NILs of CO 43 harbouring Sub1 the locus and possessing 94.37% and 95.78% of the recurrent parental CO 43 genome. Selected NILs performed equal as the recurrent parent CO 43 under normal conditions, but were more tolerant to submergence and revived better, afterwards. Under flooding NILs yielded about 25–30% higher than the recurrent parent CO 43.

scholarly journals Introgression of qDTY1.1 Governing Reproductive Stage Drought Tolerance Into an Elite Rice Variety ‘Pusa Basmati 1’ Through Marker Assisted Backcross Breeding

2020 ◽  
Author(s):  
Gaurav Dhawan ◽  
Aruna Kumar ◽  
Priyanka Dwivedi ◽  
Subbaiyan Gopala Krishnan ◽  
Madan Pal ◽  
...  
Keyword(s):  
Drought Stress ◽  
Rice Variety ◽  
Reproductive Stage ◽  
Basmati Rice ◽  
Yield Potential ◽  
High Yield ◽  
Yield Reduction ◽  
Backcross Breeding ◽  
Selection For ◽  
Marker Assisted Backcross Breeding

Drought stress at the reproductive stage in rice is one of the most important cause for yield reduction, affecting both productivity and quality. All Basmati rice varieties, including the popular cultivar &lsquo;Pusa Basmati 1 (PB1)&rsquo; is highly sensitive to reproductive stage drought stress (RSDS). We report for the first time, improvement of a Basmati cultivar for RSDS tolerance, with the introgression of a major quantitative trait locus (QTL), &lsquo;qDTY1.1&rsquo; into PB1. The QTL donor was sourced from an aus variety, Nagina 22 (N22). A QTL linked microsatellite (SSR) marker &lsquo;RM 431&rsquo; was employed for foreground selection for qDTY1.1 in the marker assisted backcross breeding process. A set of 113 SSR markers polymorphic between N22 and PB1 were utilized for background selection to ensure higher genome recovery. After three backcrosses followed by five generations of selfing, eighteen near isogenic lines (NILs) were developed, through combinatory selection for agro-morphological, grain and cooking superiority traits. The NILs were evaluated for three consecutive Kharif seasons, 2017, 2018 and 2019 under well-watered and drought stress conditions. RSDS tolerance and yield stability indicated that NIL3, NIL5, NIL6, NIL7, NIL12, NIL15 and NIL17 were best in terms of overall agronomic and grain quality under RSDS. Additionally, NILs exhibited high yield potential under normal condition as well. The RSDS tolerant Basmati NILs with high resilience to water stress, is a valuable resource for sustaining Basmati rice production under water limiting production environments.

scholarly journals Marker-assisted selection for transfer of submergence tolerance, bacterial blight resistance and yield enhancement in the rice backcross derivatives

2020 ◽  
pp. 1288-1294
Author(s):  
Shibani Mohapatra ◽  
Akshaya Kumar Bastia ◽  
Alok Kumar Panda ◽  
Sharat Kumar Pradhan
Keyword(s):  
Resistance Genes ◽  
Bacterial Blight ◽  
Rice Variety ◽  
Yield Component ◽  
Yield Enhancement ◽  
Yield Potential ◽  
Blight Resistance ◽  
Submergence Tolerance ◽  
Bacterial Blight Resistance ◽  
Rice Varieties

Achieving the demand and supply of rice for the increasing global population will be a challenging task beyond 2040. Therefore, the yield potential of popular rice varieties needs to be increased. The production from lowland rice can be enhanced by managing the major biotic and abiotic stresses faced in the ecology. In this work, we have developed the pipelines for gene stacking of submergence tolerance, bacterial blight resistance and yield component QTLs in the popular rice variety ‘Swarna’ by marker-assisted backcross breeding approach. Genotyping results of 796 BC1F1 backcross derived lines showed the presence of GW2, OsSPL14, SCM2 yield component QTLs, Sub1A for submergence tolerance and bacterial blight resistance genes xa5 and Xa21 in the progenies. The four stacked QTLs and two resistance genes were observed in six backcrosses derived progenies only. These progenies will be used in the next generation for further selection and evaluation for enhancing submergence tolerance, yield potential and bacterial blight resistance in Swarna rice variety background.

scholarly journals Development of Submergence-Tolerant, Bacterial Blight-Resistant, and High-Yielding Near Isogenic Lines of Popular Variety, ‘Swarna’ Through Marker-Assisted Breeding Approach

2021 ◽  
Vol 12 ◽  
Author(s):  
Shibani Mohapatra ◽  
Alok Kumar Panda ◽  
Akshaya Kumar Bastia ◽  
Arup Kumar Mukherjee ◽  
Priyadarshini Sanghamitra ◽  
...  
Keyword(s):  
Bacterial Blight ◽  
Target Genes ◽  
Rice Variety ◽  
Yield Component ◽  
Eastern Region ◽  
Near Isogenic Lines ◽  
Isogenic Lines ◽  
Rainfed Rice ◽  
Donor Parent ◽  
Recipient Parent

The rice variety ‘Swarna’ is highly popular in the eastern region of India. The farmers of eastern India cultivate mainly rainfed rice and face the adverse effects of climate change very frequently. Rice production in this region is not stable. Swarna variety is highly susceptible to bacterial blight (BB) disease and flash floods, which cause a heavy reduction in the yield. Transfer of five target genes/QTLs was targeted into the variety, Swarna by adopting marker-assisted backcross breeding approach. Direct markers for Sub1A, OsSPL14, and SCM2 QTLs and closely linked markers for xa5 and Xa21 BB resistance genes were screened in the backcross progenies. Swarna-Sub1, CR Dhan 800, and Swarna–Habataki near-isogenic lines (NILs) were used as donor parents in the breeding program. True multiple F1 plants were identified for backcrossing, and 796 BC1F1 seeds were generated. Foreground selection detected all the five target genes in six progenies in BC1F1 generation. The progeny containing all the target genes and more similar with the recipient parent was backcrossed, and a total of 446 BC2F1 seeds were produced. Foreground screening detected four BC2F1 plants carrying the five target genes. A total of 2,145 BC2F2 seeds were obtained from the best BC2F1 progeny. Screening of the progenies resulted in one plant with all five desirable genes, three plants with four, and another three progenies carrying three genes in homozygous conditions. The pyramided lines showed higher BB resistance and submergence tolerance than the recipient parent, Swarna. Culm strength of the pyramided lines showed higher breaking force than the recipient parent, Swarna. The pyramided line, SSBY-16-68-69 yielded the highest grain yield of 7.52 t/ha followed by the lines SSBY-16-68-511 (7.34 t/ha) and SSBY-16-68-1633 (7.02 t/ha). The best-pyramided line showed a yield advantage of 18% over the recipient parent and 6.8% over the yield component donor parent. Seven pyramided lines showed higher yield than the recipient parent, while five lines were better yielders than the yield component donor parent. The pyramided line SSBY-16-68-69 produced 365 grains/panicle, while the recipient had 152. The main morphologic and grain quality features of the recipient parent were retained in the pyramided lines.

scholarly journals Incorporation of Bacterial Blight Resistance Genes Into Lowland Rice Cultivar Through Marker-Assisted Backcross Breeding

2016 ◽  
Vol 106 (7) ◽  
pp. 710-718 ◽  
Author(s):  
Sharat Kumar Pradhan ◽  
Deepak Kumar Nayak ◽  
Elssa Pandit ◽  
Lambodar Behera ◽  
Annamalai Anandan ◽  
...  
Keyword(s):  
Resistance Gene ◽  
Resistance Genes ◽  
Bacterial Blight ◽  
Target Genes ◽  
Rice Cultivar ◽  
Recurrent Parent ◽  
Bacterial Blight Resistance ◽  
Backcross Breeding ◽  
Marker Assisted Backcross Breeding ◽  
Recipient Parent

Bacterial blight (BB) of rice caused by Xanthomonas oryzae pv. oryzae is a major disease of rice in many rice growing countries. Pyramided lines carrying two BB resistance gene combinations (Xa21+xa13 and Xa21+xa5) were developed in a lowland cultivar Jalmagna background through backcross breeding by integrating molecular markers. In each backcross generation, markers closely linked to the disease resistance genes were used to select plants possessing the target genes. Background selection was continued in those plants carrying resistant genes until BC3 generation. Plants having the maximum contribution from the recurrent parent genome were selected in each generation and hybridized with the recipient parent. The BB-pyramided line having the maximum recipient parent genome recovery of 95% was selected among BC3F1 plants and selfed to isolate homozygous BC3F2 plants with different combinations of BB resistance genes. Twenty pyramided lines with two resistance gene combinations exhibited high levels of tolerance against the BB pathogen. In order to confirm the resistance, the pyramided lines were inoculated with different X. oryzae pv. oryzae strains of Odisha for bioassay. The genotypes with combination of two BB resistance genes conferred high levels of resistance to the predominant X. oryzae pv. oryzae isolates prevalent in the region. The pyramided lines showed similarity with the recipient parent with respect to major agro-morphologic traits.

Lowland Rice Yield as Affected by Straw Incorporation and Inorganic Fertilizer Over Cropping Seasons in Fluvisol

2014 ◽  
Vol 3 (1) ◽  
pp. 129-141
Author(s):  
Brahima Koné ◽  
Zadi Florent ◽  
Gala bi Trazié Jeremie ◽  
Akassimadou Edja Fulgence ◽  
Konan Kouamé Firmin ◽  
...  
Keyword(s):  
Grain Yield ◽  
Rice Variety ◽  
Mineral Fertilizer ◽  
Lowland Rice ◽  
Inorganic Fertilizer ◽  
Cropping Season ◽  
Significant Difference ◽  
Straw Incorporation ◽  
Cropping Seasons ◽  
Fertilizer Effect

Grain yield stabilization of lowland rice over cropping seasons was explored using different compositions of inorganic fertilizers (NPK, NPKCa, NPKMg, NPKZn, NPKCaMg, NPKCaZn and NPKCaMgZn) and straw incorporation (3, 6, 9, 12 and 15 tha-1 ). No fertilizer and no straw amended plot was the control in a split-plot design with three replications laid in a Fluvisol of Guinea savanna in Centre Cote d’Ivoire. Three weeks old nursery rice variety NERICA L19 was transplanted. No significant difference of grain yield was observed between the different treatments excluding the highest yields recorded for treatments NPKMg (5.09 tha-1 ), NPKZn (5.15 tha-1 ) and NPKCaéMg (5.31 tha-1 ) compared with 12 (3.95 tha1 ) and 15 tha-1 (4.14 tha-1 ) as straw rates respectively. Grain yield declining trend was more pronounced for mineral fertilizer treatments showing twice greater depressive effect of cropping cycle compared with the straw especially, for treatments characterized by highest grain yield in the first cropping season and similar grain yields were recorded for both sources of nutrient in the third cropping cycle. Of slowness of nutrients releasing by straw, highest grain yield was expected for this soil amender within a longer period of cultivation whereas, unbalance soil micronutrients should be relevant to studious declining yield under inorganic fertilizer effect. Nevertheless, the straw rate of 12 tha-1 supplying 0.58% of NPK as mineral fertilizer equivalent can be recommended for sustaining lowland rice production in the studied agro-ecosystems unless for three cropping seasons.

scholarly journals Improved Transformation and Regeneration of Indica Rice: Disruption of SUB1A as a Test Case via CRISPR-Cas9

2021 ◽  
Vol 22 (13) ◽  
pp. 6989
Author(s):  
Yuya Liang ◽  
Sudip Biswas ◽  
Backki Kim ◽  
Julia Bailey-Serres ◽  
Endang M. Septiningsih
Keyword(s):  
Gene Editing ◽  
Indica Rice ◽  
Crop Improvement ◽  
Immature Embryo ◽  
Test Case ◽  
Submergence Tolerance ◽  
Embryogenic Calli ◽  
Submergence Stress ◽  
Efficient Vector ◽  
Vector Delivery

Gene editing by use of clustered regularly interspaced short palindromic repeats (CRISPR) has become a powerful tool for crop improvement. However, a common bottleneck in the application of this approach to grain crops, including rice (Oryza sativa), is efficient vector delivery and calli regeneration, which can be hampered by genotype-dependent requirements for plant regeneration. Here, methods for Agrobacterium-mediated and biolistic transformation and regeneration of indica rice were optimized using CRISPR-Cas9 gene-editing of the submergence tolerance regulator SUBMERGENCE 1A-1 gene of the cultivar Ciherang-Sub1. Callus induction and plantlet regeneration methods were optimized for embryogenic calli derived from immature embryos and mature seed-derived calli. Optimized regeneration (95%) and maximal editing efficiency (100%) were obtained from the immature embryo-derived calli. Phenotyping of T1 seeds derived from the edited T0 plants under submergence stress demonstrated inferior phenotype compared to their controls, which phenotypically validates the disruption of SUB1A-1 function. The methods pave the way for rapid CRISPR-Cas9 gene editing of recalcitrant indica rice cultivars.

Sign in / Sign up

Export Citation Format

Share Document