Genome-wide transcriptome profile of rice hybrids with and without Oryza rufipogon introgression reveals candidate genes for yield

Guttikonda, Haritha; Thummala, Shashi Rekha; Agarwal, Shubhi; Mangrauthia, Satendra K.; Ramanan, Rajeshwari; Neelamraju, Sarla

doi:10.1038/s41598-020-60922-6

Cited by 11 publications

(10 citation statements)

References 70 publications

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“…Similarly, the prediction of hybrids with a superior performance should be conducted before commercial release. Hence, it would be helpful to estimate hybrid potential by conducting genomic selection of hybrids using single nucleotide polymorphism (SNP) or insertion deletion (InDel) genotyping and evaluating their phenotypic performance against different agronomic traits of interest ( Cui et al, 2020 ; Guttikonda et al, 2020 ).…”

Section: Discussionmentioning

confidence: 99%

Exploiting Genic Male Sterility in Rice: From Molecular Dissection to Breeding Applications

et al. 2021

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Rice (Oryza sativa L.) occupies a very salient and indispensable status among cereal crops, as its vast production is used to feed nearly half of the world’s population. Male sterile plants are the fundamental breeding materials needed for specific propagation in order to meet the elevated current food demands. The development of the rice varieties with desired traits has become the ultimate need of the time. Genic male sterility is a predominant system that is vastly deployed and exploited for crop improvement. Hence, the identification of new genetic elements and the cognizance of the underlying regulatory networks affecting male sterility in rice are crucial to harness heterosis and ensure global food security. Over the years, a variety of genomics studies have uncovered numerous mechanisms regulating male sterility in rice, which provided a deeper and wider understanding on the complex molecular basis of anther and pollen development. The recent advances in genomics and the emergence of multiple biotechnological methods have revolutionized the field of rice breeding. In this review, we have briefly documented the recent evolution, exploration, and exploitation of genic male sterility to the improvement of rice crop production. Furthermore, this review describes future perspectives with focus on state-of-the-art developments in the engineering of male sterility to overcome issues associated with male sterility-mediated rice breeding to address the current challenges. Finally, we provide our perspectives on diversified studies regarding the identification and characterization of genic male sterility genes, the development of new biotechnology-based male sterility systems, and their integrated applications for hybrid rice breeding.

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Section: Discussionmentioning

confidence: 99%

Exploiting Genic Male Sterility in Rice: From Molecular Dissection to Breeding Applications

et al. 2021

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“…The molecular mechanism of heterosis still remains mysterious despite research on heterosis for more than a century. Unfolding research ndings indicate the potential to improve heterosis by exploiting inter-speci c heterosis between African rice and Asian rice 45 , differential expression of genes 46 , divergent selection and genetic introgression 47 , genomic hybrid breeding using whole genome markers 48 , epistasis interactions between select parents 49 , chromosome-segment substitution lines 47 , heterotic loci from wild Oryza longistaminata for yield heterosis 50 , wide compatible neo-tetraploid rice line with long panicles 51 and genome wide transcriptome pro ling of O. ru pogon 52 .…”

Section: Unsettled Issuesmentioning

confidence: 99%

Grain Yield Performance of Hybrid Rice in Multi-Environment Tests for Thirty-two Years in India

Muralidharan¹,

Prasad²,

Rao³

et al. 2020

Preprint

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Background: Hybrid F1genotypes with higher yields or improvement in other traits of economic value due to heterosis as compared to inbred local check varieties (ILCV), are identified and released as hybrid commercial varieties. We analyzed the yield data of 2070 hybrid F1 genotypes with ILCV evaluated over 32 years (1988 to 2019) in 2376 multi-environment experiments executed at 102 locations in the irrigated ecosystem across India. Results: The genetic gain or loss in yield of hybrid F1 genotypes estimated over the test duration was non-significant. Hybrid F1 genotypes produced 10% more grains (728-2588 kg/ha) than ILCV in many experiments at several locations. Our analyses have established that grain yields of 7.0 to 7.9 t/ha, were harvested in hybrid F1 genotypes with early, mid-early and medium maturity duration, and in those with medium slender grains at many locations in 362 experiments. A higher level of rice productivity per day (62 to 63 kg/ha) was recorded with the early maturing and mid-early maturing hybrid F1 genotypes in these tests. The N requirement to produce 8 t/ha of hybrid rice grains was 15 kg N/t as compared with a minimum of 20 kg N/t used in China. Both the hybrids and inbreds in these experiments produced grain yields that were easily attained previously with high yielding (≥10 t/ha) commercial inbreds since 1968. Unless the attainable yields are reached in inbred checks with the proven appropriate crop production practices in an experiment, it is futile to estimate a genetic gain or loss for grain yields in new genotypes developed.Conclusions: Hybrid genotypes bred in India produced yields of 7 to 8 t/ha which matched with reports from China on hybrids and green super rice; these India-bred hybrids showed higher productivity per day and shorter maturity periods than super hybrids of China. Opportunities still exist to breed indica/japonica hybrids to obtain more heterotic early and mid-early maturing hybrids, and develop efficient agronomical practices to realize the potential advantages from hybrids. There is scope for breeders to limit test locations to represent specific target areas to avoid data loss. Focusing on removing obstacles in hybrid seed production is essential to exploit yield heterosis in hybrids, and to make hybrid rice technology profitable to farmers.

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“…; Gaikwad et al., 2019; Guttikonda et al., 2020; Luo et al., 2011). Using wild species, alien introgression lines (ILs), Chromosomal Segment Substitution Lines (CSSLs), Backcross Inbred Lines (BILs), Near Isogenic Lines (NILs) and Doubled Haploids (DH) have been produced for the mapping of genes/QTLs (Figure 1).…”

Section: Introductionmentioning

confidence: 99%

Deployment of wild relatives for genetic improvement in rice (Oryza sativa)

et al. 2020

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Rice is one of the most important crops in the world. The wild species of rice are expected to have novel beneficial alleles that have been lost from cultivated rice during the process of domestication. Therefore, wild species could be the potential source to induce lost genetic diversity in cultivated rice. Serving as an important reservoir of novel genes/QTLs, wild species, in general, are better adapted to different ecologies and can tolerate many biotic and abiotic stresses. Despite that, only a few wild species are studied and extensive characterization both at the molecular and morphological level is yet to be achieved. Several agronomically important genes/QTLs for improving biotic and abiotic stresses, resistance, productivity and grain quality traits were identified from AA genome donor wild species and were tagged with breeder friendly molecular markers for their transfer to elite genetic backgrounds. The present review provides information on the important wild rice species harbouring genes/QTLs for agriculturally important traits and their successful utilization in rice breeding programmes.

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Genome-wide transcriptome profile of rice hybrids with and without Oryza rufipogon introgression reveals candidate genes for yield

Cited by 11 publications

References 70 publications

Exploiting Genic Male Sterility in Rice: From Molecular Dissection to Breeding Applications

Exploiting Genic Male Sterility in Rice: From Molecular Dissection to Breeding Applications

Grain Yield Performance of Hybrid Rice in Multi-Environment Tests for Thirty-two Years in India

Deployment of wild relatives for genetic improvement in rice (Oryza sativa)

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