scholarly journals Cloning of long sterile lemma (lsl2), a single recessive gene regulating spike germination in rice (Oryza sativa L.)

2020 ◽  
Author(s):  
Dewei Yang ◽  
Niqing He ◽  
Xianghua Zheng ◽  
Yanmei Zhen ◽  
Zhenxin Xie ◽  
...  
Keyword(s):  
Seed Germination ◽  
Agronomic Traits ◽  
Oryza Sativa L ◽  
Gene Prediction ◽  
Germination Rate ◽  
Rice Genome ◽  
Recessive Gene ◽  
Floral Organ ◽  
Monocotyledonous Plant ◽  
Sterile Lemma

Abstract Background: Rice is a typical monocotyledonous plant and an important cereal crop. The structural units of rice flowers are spikelets and florets, and floral organ development and spike germination affect rice reproduction and yield.Results: In this study, we identified a novel long sterile lemma (lsl2) mutant from an EMS population. First, we mapped the lsl2 gene between the markers Indel7-22 and Indel7-27, which encompasses a 25-kb region. The rice genome annotation indicated the presence of four candidate genes in this region. Through gene prediction and cDNA sequencing, we confirmed that the target gene in the lsl2 mutant is allelic to LONG STERILE LEMMA1 (G1)/ELONGATED EMPTY GLUME (ELE), hereafter referred to as lsl2. Further analysis of the lsl2 and LSL2 proteins showed a one-amino-acid change, namely, the mutation of serine (Ser) 79 to proline (Pro) in lsl2 compared with LSL2, and this mutation might change the function of the protein. Knockout experiments showed that the lsl2 gene is responsible for the long sterile lemma phenotype. The lsl2 gene might reduce the damage induced by spike germination by decreasing the seed germination rate, but other agronomic traits of rice were not changed in the lsl2 mutant. Taken together, our results demonstrate that the lsl2 gene will have specific application prospects in future rice breeding.Conclusions: The lsl2 gene is responsible for the long sterile lemma phenotype and might reduce the damage induced by spike germination by decreasing the seed germination rate.

scholarly journals Cloning of long sterile lemma (lsl2), a single recessive gene that regulates spike germination in rice (Oryza sativa L.)

2020 ◽  
Author(s):  
dewei yang ◽  
Niqing He ◽  
Xianghua Zheng ◽  
Yanmei Zhen ◽  
Zhenxin Xie ◽  
...  
Keyword(s):  
Seed Germination ◽  
Agronomic Traits ◽  
Oryza Sativa L ◽  
Gene Prediction ◽  
Germination Rate ◽  
Rice Genome ◽  
Recessive Gene ◽  
Floral Organ ◽  
Monocotyledonous Plant ◽  
Sterile Lemma

Abstract Background: Rice is a typical monocotyledonous plant and an important cereal crop. The structural units of rice flowers are spikelets and florets, and floral organ development and spike germination affect rice reproduction and yield.Results: In this study, we identified a novel long sterile lemma (lsl2) mutant from an EMS population. First, we mapped the lsl2 gene between the markers Indel7-22 and Indel7-27, which encompasses a 25-kb region. The rice genome annotation indicated the presence of four candidate genes in this region. Through gene prediction and cDNA sequencing, we confirmed that the target gene in the lsl2 mutant is allelic to LONG STERILE LEMMA1 (G1)/ELONGATED EMPTY GLUME (ELE), hereafter referred to as lsl2. Further analysis of the lsl2 and LSL2 proteins showed a one-amino-acid change, namely, the mutation of serine (Ser) 79 to proline (Pro) in lsl2 compared with LSL2, and this mutation might change the function of the protein. Knockout experiments showed that the lsl2 gene is responsible for the long sterile lemma phenotype. The lsl2 gene might reduce the damage induced by spike germination by decreasing the seed germination rate, but other agronomic traits of rice were not changed in the lsl2 mutant. Taken together, our results demonstrate that the lsl2 gene will have specific application prospects in future rice breeding.Conclusions: The lsl2 gene is responsible for the long sterile lemma phenotype and might reduce the damage induced by spike germination by decreasing the seed germination rate.

scholarly journals Cloning of long sterile lemma (lsl2), a single recessive gene that regulates spike germination in rice (Oryza sativa L.)

2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Dewei Yang ◽  
Niqing He ◽  
Xianghua Zheng ◽  
Yanmei Zhen ◽  
Zhenxin Xie ◽  
...  
Keyword(s):  
Seed Germination ◽  
Agronomic Traits ◽  
Oryza Sativa L ◽  
Gene Prediction ◽  
Germination Rate ◽  
Rice Genome ◽  
Recessive Gene ◽  
Floral Organ ◽  
Monocotyledonous Plant ◽  
Sterile Lemma

Abstract Background Rice is a typical monocotyledonous plant and an important cereal crop. The structural units of rice flowers are spikelets and florets, and floral organ development and spike germination affect rice reproduction and yield. Results In this study, we identified a novel long sterile lemma (lsl2) mutant from an EMS population. First, we mapped the lsl2 gene between the markers Indel7–22 and Indel7–27, which encompasses a 25-kb region. The rice genome annotation indicated the presence of four candidate genes in this region. Through gene prediction and cDNA sequencing, we confirmed that the target gene in the lsl2 mutant is allelic to LONG STERILE LEMMA1 (G1)/ELONGATED EMPTY GLUME (ELE), hereafter referred to as lsl2. Further analysis of the lsl2 and LSL2 proteins showed a one-amino-acid change, namely, the mutation of serine (Ser) 79 to proline (Pro) in lsl2 compared with LSL2, and this mutation might change the function of the protein. Knockout experiments showed that the lsl2 gene is responsible for the long sterile lemma phenotype. The lsl2 gene might reduce the damage induced by spike germination by decreasing the seed germination rate, but other agronomic traits of rice were not changed in the lsl2 mutant. Taken together, our results demonstrate that the lsl2 gene will have specific application prospects in future rice breeding. Conclusions The lsl2 gene is responsible for the long sterile lemma phenotype and might reduce the damage induced by spike germination by decreasing the seed germination rate.

scholarly journals Cloning of Long Sterile Lemma (lsl2), A Single Recessive Gene Regulating Spike Germination in Rice (Oryza Sativa L.)

2020 ◽  
Author(s):  
Dewei Yang ◽  
Niqing He ◽  
Xianghua Zheng ◽  
Yanmei Zhen ◽  
Zhenxin Xie ◽  
...  
Keyword(s):  
Seed Germination ◽  
Agronomic Traits ◽  
Oryza Sativa L ◽  
Gene Prediction ◽  
Germination Rate ◽  
Rice Genome ◽  
Recessive Gene ◽  
Floral Organ ◽  
Monocotyledonous Plant ◽  
Sterile Lemma

Abstract Background: Rice is a typical monocotyledonous plant and an important cereal crop. The structural units of rice flowers are spikelets and florets. Floral organ development and spike germination affect rice reproduction and yield. Results: In this study, we identified a novel long sterile lemma (lsl2) mutant from an EMS population. First, we mapped the lsl2 gene between the markers Indel7-22 and Indel7-27, which encompasses a region of 25 kb. The rice genome annotation indicates the presence of four candidate genes in this region. Through gene prediction and cDNA sequencing, we confirmed that the target gene in the lsl2 mutant is allelic to LONG STERILE LEMMA1 (G1)/ELONGATED EMPTY GLUME (ELE), hereafter referred to as lsl2. Further analysis showed a one-amino acid change, serine (Ser) 79 mutated to proline (Pro), in the lsl2 protein had compared with LSL2, which may change the function of the LSL2 protein. The knockout experiments showed that the lsl2 gene is responsible for the long sterile lemma phenotype. The lsl2 gene may reduce the damage caused by spike germination by decreasing the seed germination rate, and yet other agronomic traits of rice are not affected in the lsl2 mutant. Taken together, our results demonstrate that the lsl2 gene will have specific application prospects in future rice breeding.Conclusions: The lsl2 gene is responsible for the long sterile lemma phenotype, and may reduce the damage caused by spike germination by decreasing the seed germination rate.

scholarly journals Fine Mapping and Cloning of the Novel Gene Qph-IAA30, which Simultaneously Affects the Plant Height, Panicle Length, Spikelet Number and Yield in Rice (Oryza Sativa L.)

2021 ◽  
Author(s):  
Niqing He ◽  
Guangping Zhan ◽  
Fenghuang Huang ◽  
Xianghua Zheng ◽  
Chaoping Cheng ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Plant Height ◽  
Agronomic Traits ◽  
Oryza Sativa L ◽  
Gene Prediction ◽  
Rice Genome ◽  
Rice Cultivar ◽  
Rice Cultivars ◽  
Panicle Length ◽  
Higher Plant

Abstract Background: The plant height is one of the most important agronomic traits in rice (Oryza sativa L.), and the introduction of semidwarf rice led to record yield increases throughout Asia in the 1960s. Near-isogenic lines (NILs) are the most powerful tools for the detection and precise mapping of quantitative trait loci (QTLs).Results: In this study, 176 NILs were produced from the crossing and back-crossing of two rice cultivars. Specifically, Jiafuzhan, an indica rice cultivar, served as the recipient, and Hui1586, a restorer japonica cultivar, served as the donor. Using the 176 NILs, we identified a novel QTL for plant height in NIL36. First, we mapped the QTL to a 31-kb region between the markers Indel12-29 and Indel12-31. The rice genome annotation indicated the presence of three candidate genes in this region. Through gene prediction and cDNA sequencing, we confirmed that the target gene in NIL36 was Osiaa30, hereafter referred to as qPH-iaa30. Further analysis showed that qPH-iaa30 was produced by a 1-bp deletion in the first exon that resulted in the premature termination of OsIAA30. Knockout experiments showed that qPH-IAA30 was responsible for the plant height phenotype. Although qPH-IAA30 from Jiafuzhan showed a higher plant height, the plant also exhibited a longer panicle length, more spikelets and a higher yield. Taken together, our results demonstrate that qPH-IAA30 has good specific application prospects in future rice breeding.Conclusions: 176 NILs are produced from two rice cultivars, using the 176 NILs, a novel qPH-iaa30 for plant height is identified, and the qPH-IAA30 gene is responsible for the plant height phenotype.

scholarly journals GENE ACTION OF AGRONOMIC TRAITS IN RICE (Oryza sativa L.)

2007 ◽  
Vol 20 (2) ◽  
pp. 31-36
Author(s):  
P. S. Biswas ◽  
M. Enamul Haque
Keyword(s):  
Gene Action ◽  
Agronomic Traits ◽  
Oryza Sativa L ◽  
Dominant Gene ◽  
Recessive Gene ◽  
Diallel Cross ◽  
Thousand Grain Weight ◽  
Dominance Model ◽  
Partial Dominance ◽  
Days To Heading

Six parent diallel cross without reciprocal was studied to investigate the genetic behavior of different agronomic traits in rice. The analysis of Wr-Vr graph showed that panicle length, thousand grain weight and grain yield per plant did not follow the additive-dominance model indicating epistatic gene action responsible for the expression of these traits. All other traits under the study were conditioned by overdominance gene action except grains per panicle, which was controlled by partial dominance. The Yr? – (Vr + Wr)? graph revealed random distribution of dominant and recessive gene in expressing different traits in different parent, while correlation between parental mean and parental order of dominance indicated increasing effect of dominant gene for all the traits except days to heading and % spikelet sterility.DOI: http://dx.doi.org/10.3329/bjpbg.v20i2.17033

Identification and fine mapping of lemma-distortion1, a single recessive gene playing an essential role in the development of lemma in rice

2016 ◽  
Vol 154 (6) ◽  
pp. 989-1001 ◽  
Author(s):  
D. W. YANG ◽  
X. F. YE ◽  
X. H. ZHENG ◽  
C. P. CHENG ◽  
N. YE ◽  
...  
Keyword(s):  
Zinc Finger ◽  
Zinc Finger Protein ◽  
Rice Genome ◽  
Recessive Gene ◽  
Floral Organ ◽  
Formation Mechanisms ◽  
Single Recessive Gene ◽  
New Gene ◽  
Genome Annotations ◽  
Floral Organ Specification

SUMMARYFloral organ development influences plant reproduction and crop yield. The mechanism of floral organ specification is generally conserved in angiosperms as demonstrated by the ‘ABC’ model. However, mechanisms underlying the development of floral organs in specific groups of species such as grasses remain unclear. In the genus Oryza (rice), a spikelet consists of a fertile floret sub-tended by a lemma, a palea, two sterile lemmas and rudimentary glumes. To understand how the lemma is formed, a curve-shaped lemma-distortion1 (ld1) mutant was identified. Genetic analysis confirmed that the ld1 mutant phenotype was due to a single recessive gene mutation. Using a large F2 population, the LD1 gene was mapped between markers Indel-7-15 and Indel-7-18, which encompassed a region of 15·6 kilo base pairs (kbp). According to rice genome annotations, two putative genes, LOC_Os07g32510 and LOC_Os07g32520, were located in this candidate region. However, DNA sequencing results indicated only 1 base pair (bp) substitution (T⇨C) was found in LOC_Os07g32510 between the wild-type and the ld1 mutant. Thus LOC_Os07g32510, encoding a DNA binding with one zinc finger (DoF) containing protein, was the candidate gene for LD1. Further analysis showed that mutation of the amino acid cysteine (C) to arginine (R) was likely to lead to zinc finger protein deactivation. Phylogenetic and conservation analysis of the gene from different species revealed that cysteine was critical to LD1 function. As a new gene controlling lemma development, the study of LD1 could provide insights into rice floral organ formation mechanisms.

scholarly journals Characterization and Gene Mapping of non-open hull 1 (noh1) Mutant in Rice (Oryza sativa L.)

Agronomy ◽  
2019 ◽  
Vol 9 (2) ◽  
pp. 56 ◽  
Author(s):  
Jun Zhang ◽  
Hao Zheng ◽  
Xiaoqin Zeng ◽  
Hui Zhuang ◽  
Honglei Wang ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Oryza Sativa L ◽  
Recessive Gene ◽  
Physical Region ◽  
Chromosome 1 ◽  
Single Recessive Gene ◽  
Rice Mutant ◽  
Qpcr Analysis ◽  
Ethylmethane Sulfonate ◽  
Sterile Lemma

Hull opening is a key physiological process during reproductive development, strongly affecting the subsequent fertilization and seed development in rice. In this study, we characterized a rice mutant, non-open hull 1 (noh1), which was derived from ethylmethane-sulfonate (EMS)-treated Xinong 1B (Oryza sativa L.). All the spikelets of noh1 developed elongated and thin lodicules, which caused the failure of hull opening and the cleistogamy. In some spikelets of the noh1, sterile lemmas transformed into hull-like organs. qPCR analysis indicated that the expression of A- and E-function genes was significantly upregulated, while the expression of some B-function genes was downregulated in the lodicules of noh1. In addition, the expression of A-function genes was significantly upregulated, while the expression of some sterile-lemma maker genes was downregulated in the sterile lemma of noh1. These data suggested that the lodicule and sterile lemma in noh1 mutant gained glume-like and lemma-like identity, respectively. Genetic analysis showed that the noh1 trait was controlled by a single recessive gene. The NOH1 gene was mapped between the molecular markers ZJ-9 and ZJ-25 on chromosome 1 with a physical region of 60 kb, which contained nine annotated genes. These results provide a foundation for the cloning and functional research of NOH1 gene.

Fine mapping of a pistilloid-stamen (PS) gene on the short arm of chromosome 1 in rice

Genome ◽  
2006 ◽  
Vol 49 (8) ◽  
pp. 1016-1022 ◽  
Author(s):  
Hongfa Luo ◽  
Yunfeng Li ◽  
Zhenglin Yang ◽  
Bingqiang Zhong ◽  
Rong Xie ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Simple Sequence Repeat ◽  
Molecular Mapping ◽  
Oryza Sativa L ◽  
Recessive Gene ◽  
Physical Region ◽  
Floral Organ ◽  
Chromosome 1 ◽  
Sequence Repeat ◽  
Simple Sequence

A novel floral organ mutant of rice (Oryza sativa L. subsp. indica), termed pistilloid-stamen (ps) here, has flowers with degenerated lemma and palea, with some stamens transformed into pistils and pistil–stamen chimeras. Genetic analysis confirmed that the ps trait is controlled by a single recessive gene. F2 and F3 segregation populations derived from PS ps heterozygote crossed with Oryza sativa subsp. indica 'Luhui-17' (PS PS) were used for molecular mapping of the gene using simple sequence repeat (SSR) markers. With 97 recessive individuals from an F2 segregation population, the ps locus was preliminarily mapped 6.2 cM distal to marker RM6324 and 3.1 cM proximal to marker RM6340 in the terminal region of the short arm of chromosome 1. With a large F3 segregation population, the gene was fine-mapped between markers RM6470 and RM1141, at distances of 0.10 and 0.03 cM to each marker, respectively. The position of the ps gene was finally located within a 20 kb physical region containing 3 annotated putative genes. One of them, encoding a protein with a single C2H2 zinc-finger domain, may be the candidate gene for PS.Key words: rice (Oryza sativa L. subsp. indica), pistilloid-stamen mutant (ps mutant), molecular marker, simple sequence repeat (SSR), gene mapping

The DROOPING LEAF (DR) Gene Encoding GDSL Esterase Controls Leaf Morphology in Rice (Oryza sativa L.)

2020 ◽  
Author(s):  
Yoye Yu ◽  
Mi-ok Woo ◽  
Piao Rihua ◽  
Hee-Jong Koh
Keyword(s):  
Leaf Morphology ◽  
Agronomic Traits ◽  
Oryza Sativa L ◽  
Recessive Gene ◽  
Rice Cultivar ◽  
Chromosome 2 ◽  
Wild Type ◽  
Gene Encoding ◽  
Single Nucleotide ◽  
Nutrient Analysis

Abstract Background: Leaf morphology is one of the most important agronomic traits in rice breeding because of its contribution to crop yield. Although many studies related to leaf phenotypes in rice have been identified, our understanding of the mechanism of grain development is still limited.Results: The drooping leaf (dr) mutant was developed from the Ilpum rice cultivar by ethyl methanesulfonate (EMS) mutagenesis. Compared with the wild-type, the dr mutant exhibited drooping leaves accompanied by a small midrib, short panicle, and reduced plant height. The phenotype of the dr mutant was caused by a mutation within a single recessive gene on chromosome 2, dr (LOC_Os02g15230), which encodes a GDSL esterase. Analysis of wild-type and mutant sequences revealed that the dr allele carried a single nucleotide substitution, glycine to aspartic acid. RNAi targeted to LOC_Os02g15230 produced the same phenotype as the dr mutation, confirming LOC_Os02g15230 as the dr gene. Microscopic observations and nutrient analysis of SiO2 revealed that silica was less abundant in mutant leaves than in wild-type leaves. Conclusions: This study suggests that the dr gene is involved in the regulation of silica deposition and that disruption of silica processes lead to all drooping leaf phenotypes.

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