Fertile Tetraploids: New Resources for Future Rice Breeding?

Koide, Yohei; Kuniyoshi, Daichi; Kishima, Yuji

doi:10.3389/fpls.2020.01231

Cited by 28 publications

(28 citation statements)

References 48 publications

(96 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Polyploids showed stronger short-term adaptive potential during environmental change due to changes in gene expression and increased genetic diversity [ 3 , 4 , 5 ]. Autotetraploid rice was derived from diploid rice by chromosome doubling through colchicine treatment to enrich the breeding germplasm of rice, which showed great biological advantages, stress resistance and high heterosis [ 6 , 7 , 8 , 9 , 10 ]. However, low seed set is a major obstacle in the utilization of autotetraploid rice at commercial level [ 11 , 12 , 13 , 14 ].…”

Section: Introductionmentioning

confidence: 99%

Cytological Observations and Bulked-Segregant Analysis Coupled Global Genome Sequencing Reveal Two Genes Associated with Pollen Fertility in Tetraploid Rice

Kamara

Jiao

et al. 2021

IJMS

View full text Add to dashboard Cite

Neo-tetraploid rice with high fertility is a useful germplasm for polyploid rice breeding, which was developed from the crossing of different autotetraploid rice lines. However, little information is available on the molecular mechanism underlying the fertility of neo-tetraploid rice. Here, two contrasting populations of tetraploid rice, including one with high fertility (hereafter referred to as JG) and another with low fertility (hereafter referred to as JD), were generated by crossing Huaduo 3 (H3), a high fertility neo-tetraploid rice that was developed by crossing Jackson-4x with 96025-4x, and Huajingxian74-4x (T452), a low fertility autotetraploid rice parent. Cytological, global genome sequencing-based bulked-segregant (BSA-seq) and CRISPR/Cas9 technology were employed to study the genes associated with pollen fertility in neo-tetraploid rice. The embryo sacs of JG and JD lines were normal; however, pollen fertility was low in JD, which led to scarce fertilization and low seed setting. Cytological observations displayed low pollen fertility (25.1%) and approximately 31.3 and 27.2% chromosome lagging at metaphase I and II, and 28.8 and 24.8% chromosome straggling at anaphase I and II in JD, respectively. BSA-seq of F2–3 generations and RNA-seq of F4 generation detected a common fragment, i.e., 18,915,234–19,500,000, at chromosome 7, which was comprised of 78 genes associated with fertility. Among 78 genes, 9 genes had been known to be involved in meiosis and pollen development. Two mutants ny1 (LOC_Os07g32406) and ny2 (LOC_Os07g32040) were generated by CRISPR/Cas9 knockout in neo-tetraploid rice, and which exhibited low pollen fertility and abnormal chromosome behavior. Our study revealed that two unknown genes, LOC_Os07g32406 (NY1) and LOC_Os07g32040 (NY2) play an important role in pollen development of neo-tetraploid rice and provides a new perspective about the genetic mechanisms of fertility in polyploid rice.

show abstract

Section: Introductionmentioning

confidence: 99%

Cytological Observations and Bulked-Segregant Analysis Coupled Global Genome Sequencing Reveal Two Genes Associated with Pollen Fertility in Tetraploid Rice

Kamara

Jiao

et al. 2021

IJMS

View full text Add to dashboard Cite

show abstract

“…In addition, the autotetraploid rice is a rich germplasm resource, but hybrid sterility has been the limiting factor for their application in hybrid rice breeding. Recently, some studies have analyzed the important contribution of meiosis-related genes ( OsMND1 ) toward increased performance of autotetraploid rice hybrids ( Xiong et al, 2019 ; Koide et al, 2020 ). In addition, it has been recently identified that polyploidy (autotetraploid and neo-tetraploid) rice hybrids exhibited higher expressions of several genes involved in carbohydrate and lipid metabolism during pollen development and displayed higher seed setting and positive heterosis as compare to parental lines ( Chen et al, 2019 ; Ghaleb et al, 2020 ).…”

Section: Discussionmentioning

confidence: 99%

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

et al. 2021

View full text Add to dashboard Cite

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.

show abstract

“…The high-quality genome sequencing and genomic variation data provided a way to precisely resolve the population structure of plants, which also facilitated the detection of functional genes in rice (Wang et al 2018b), maize (Lai et al 2010), soybean (Lam et al 2011) and cotton (Ma et al 2018). NTRs are important fertile materials for tetraploid rice breeding, and the development of NTRs provided rice breeders a new direction for the improvement and commercial utilization of tetraploid rice (Guo et al 2017;Koide et al 2020;Ghaleb et al 2020). Understanding the genetic variations of NTRs will largely facilitate their utilization and gene functional analysis.…”

Section: Construction Of the First Large Scale Genomic Variation Repomentioning

confidence: 99%

“…After many years of tremendous efforts, a newly developed tetraploid rice with high fertility, i.e. neo-tetraploid rice, was developed by our research group through crossing of autotetraploid rice (Guo and Liu 2014;Guo et al 2016;Guo et al 2017;Bei et al 2019;Yu et al 2020;Ghaleb et al 2020), which may become new useful resources for rice breeding (Koide et al 2020). Compared with ATR, several agronomic traits improved significantly in NTR, such as seed setting and grain number per panicle, and also contained non-parental variant genes associated with fertility and yield (Yu et al 2020).…”

Section: Introductionmentioning

confidence: 99%

Genomics Analyses Reveal Unique Classification, Population Structure and Novel Allele of Neo-Tetraploid Rice

et al. 2021

Rice

View full text Add to dashboard Cite

Background Neo-tetraploid rice (NTR) is a useful new germplasm that developed from the descendants of the autotetraploid rice (ATR) hybrids. NTR showed improved fertility and yield potential, and produced high yield heterosis when crossed with indica ATR for commercial utilization. However, their classification, population structure and genomic feature remain elusive. Results Here, high-depth genome resequencing data of 15 NTRs and 18 ATRs, together with 38 publicly available data of diploid rice accessions, were analyzed to conduct classification, population structure and haplotype analyses. Five subpopulations were detected and NTRs were clustered into one independent group that was adjacent to japonica subspecies, which maybe the reason for high heterosis when NTRs crossed with indica ATRs. Haplotype patterns of 717 key genes that associated with yield and other agronomic traits were revealed in these NTRs. Moreover, a novel specific SNP variation was detected in the first exon of HSP101, a known heat-inducible gene, which was conserved in all NTRs but absent in ATRs, 3KRG and RiceVarMap2 databases. The novel allele was named as HSP101–1, which was confirmed to be a heat response factor by qRT-PCR, and knockout of HSP101–1 significantly decreased the thermotolerance capacity of NTR. Interestingly, HSP101–1 was also specifically expressed in the anthers of NTR at pre-meiotic and meiosis stages under optimal environment without heat stress, and its loss-of-function mutant showed significant decrease in fertility of NTR. Conclusion The construction of first genomic variation repository and the revelation of population structure provide invaluable information for optimizing the designs of tetraploid rice breeding. The detection of specific genomic variations offered useful genomic markers and new directions to resolve high fertility mechanism of NTR.

show abstract

Fertile Tetraploids: New Resources for Future Rice Breeding?

Cited by 28 publications

References 48 publications

Cytological Observations and Bulked-Segregant Analysis Coupled Global Genome Sequencing Reveal Two Genes Associated with Pollen Fertility in Tetraploid Rice

Cytological Observations and Bulked-Segregant Analysis Coupled Global Genome Sequencing Reveal Two Genes Associated with Pollen Fertility in Tetraploid Rice

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

Genomics Analyses Reveal Unique Classification, Population Structure and Novel Allele of Neo-Tetraploid Rice

Contact Info

Product

Resources

About