Fine mapping and candidate gene analysis of a new mutant gene for panicle apical abortion in rice

Akter, Md. Babul; Piao, Rihua; Kim, Backki; Lee, Yunjoo; Koh, Eun‐Hee; Koh, Hee‐Jong

doi:10.1007/s10681-014-1074-8

Cited by 12 publications

(10 citation statements)

References 46 publications

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“…Low floret fertility in the apical and basal regions of the ear is a very common biological phenomenon in cereal crops, as shown by the “bald” phenomenon in maize (Satoh-Nagasawa et al, 2006 ; Meng et al, 2007 ; Gallavotti et al, 2011 ). More detailed studies have been conducted in rice (Yamagishi et al, 2004 ; Li et al, 2009 ; Cheng et al, 2011 ; Tan et al, 2011 ; Akter et al, 2014 ). Gene SP1 was shown to be a PTR transporter following map-based cloning and mutation caused severe degradation of basal spikelets (Li et al, 2009 ).…”

Section: Introductionmentioning

confidence: 99%

Association Analysis of Grain-setting Rates in Apical and Basal Spikelets in Bread Wheat (Triticum aestivum L.)

Guo

Yong²,

Shi

et al. 2015

Front. Plant Sci.

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The rates of grain-setting in apical and basal spikelets in wheat directly affect the kernel number per spike (KNPS). In this study, 220 wheat lines from 18 Chinese provinces and five foreign countries were used as a natural population. Phenotypic analysis showed differences in grain-setting rates between apical and basal spikelets. The broad-sense heritability of grain-setting rate in apical spikelets (18.7–21.0%) was higher than that for basal spikelets (9.4–16.4%). Significant correlations were found between KNPS and grain numbers in apical (R2 = 0.40–0.45, P < 0.01) and basal (R2 = 0.41–0.56, P < 0.01) spikelets. Seventy two of 106 SSR markers were associated with grain setting, 32 for apical spikelets, and 34 for basal spikelets. The SSR loci were located on 17 chromosomes, except 3A, 3D, 4A, and 7D, and explained 3.7–22.9% of the phenotypic variance. Four markers, Xcfa2153-1A202, Xgwm186-5A118, Xgwm156-3B319, and Xgwm537-7B210, showed the largest effects on grain numbers in apical and basal spikelets. High grain numbers in apical and basal spikelets were associated with elite alleles. Ningmai 9, Ning 0569, and Yangmai 18 with high grain-setting rates carried larger numbers of favorable alleles. Comparison of grain numbers in basal and apical spikelets of 35 Yangmai and Ningmai lines indicated that the Ningmai lines had better grain-setting rates (mean 21.4) than the Yangmai lines (16.5).

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Section: Introductionmentioning

confidence: 99%

Association Analysis of Grain-setting Rates in Apical and Basal Spikelets in Bread Wheat (Triticum aestivum L.)

Guo

Yong²,

Shi

et al. 2015

Front. Plant Sci.

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“…Akter et al. () cloned the first panicle apical abortion gene paa‐h (LOC_Os04 g56160), but the genetic mechanism of panicle apical abortion is still unclear.…”

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confidence: 99%

Mapping and candidate gene analysis for a new top spikelet abortion mutant in rice

et al. 2016

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Grain numbers is one of the determinations for rice yield and directly associated with spikelet numbers per panicle and its normal development. Lots of genes responsible for spikelet numbers and spikelet early development have been identified, but the molecular information about the spikelet development at later development is still limited. Here, we isolated a rice spikelet abnormal development mutant, which shows degenerated spikelet at the top panicle and named aborted top spikelet mutant 1(Ats1). The spikelets derived from the middle and bottom branches per panicle of Ats1 show normal development with those of wild type. However, a large number of branches and spikelets with arrested development were often observed only on apex panicle. The abnormality did not appear until the stage In8 when rachises elongate rapidly and reproductive organs get mature, based on observations through SEM analysis. The aborted spikelet could develop the complete floral organs with a pair of rudimentary glume, a pair of empty glume, two lodicule, six stamens and one carpel. But all these floral organs did not develop maturity. Genetic analysis on two F 2 populations indicated that the Ats1 was controlled by a single dominant gene. By using bulked segregant analysis of F 2 population developed from Ats1 crossing with Songjing6, ATS1 was mapped on chromosome 8 between RM3819 and RM5556. Then, the fine mapping was performed with 1078 F 2 population developed from Ats1 and IR36. The ATS1 locus was finely mapped in an 85.7 kb region between RM22448 and STS8-2 with 8 genes according to the rice annotation project database. Sequence analysis of the candidate genes within the delimited region of the Ats1 and Akihikari showed two-nucleotide changes, including single-nucleotide substitutions corresponding to an amino acid substitution from asparagine to lysine acid in exons 3 and a 1-bp deletion resulting in a premature stop codon in exon 22 at the candidate gene, LOC_Os08g06480. A cleaved amplified polymorphic sequence (CAPS) marker, CAPS-ats1, was developed from the 1-bp deletion site. The complete cosegregation of the CAPS genotypes with the matching phenotypes were observed in the F 2 populations. This suggested that Os08g06480 is most likely the ATS1 gene. These results will provide more information for better understanding of the molecular mechanism governing top spikelet abortion within a short developmental period.

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“…然而, 关于穗退化的 2,5,10] ; TUT1与OsLOG共同位于1号染色上 [6,12] ; 突变体 tsr 的候选基因 Os03g0320000 位于 3 号染色体上 [9] . 而本研究发现候选基因LOC_Os04g40720位于 4号染色体上, 与Akter等人 [8] 所得同在4号染色体上…”

Section: Paa1331是一个调控穗顶退化的新基因unclassified

Identification and gene mapping of a panicle apical abortion mutant (<italic>paa1331</italic>) in rice

Hou¹,

PengYongbin²,

Han³

et al. 2018

Chin. Sci. Bull.

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Fine mapping and candidate gene analysis of a new mutant gene for panicle apical abortion in rice

Cited by 12 publications

References 46 publications

Association Analysis of Grain-setting Rates in Apical and Basal Spikelets in Bread Wheat (Triticum aestivum L.)

Association Analysis of Grain-setting Rates in Apical and Basal Spikelets in Bread Wheat (Triticum aestivum L.)

Mapping and candidate gene analysis for a new top spikelet abortion mutant in rice

Identification and gene mapping of a panicle apical abortion mutant (<italic>paa1331</italic>) in rice

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Fine mapping and candidate gene analysis of a new mutant gene for panicle apical abortion in rice

Cited by 12 publications

References 46 publications

Association Analysis of Grain-setting Rates in Apical and Basal Spikelets in Bread Wheat (Triticum aestivum L.)

Association Analysis of Grain-setting Rates in Apical and Basal Spikelets in Bread Wheat (Triticum aestivum L.)

Mapping and candidate gene analysis for a new top spikelet abortion mutant in rice

Identification and gene mapping of a panicle apical abortion mutant (&lt;italic&gt;paa1331&lt;/italic&gt;) in rice

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Identification and gene mapping of a panicle apical abortion mutant (<italic>paa1331</italic>) in rice