Cardinal temperatures variability within a tropical japonica rice diversity panel

<p>Indonesia is rich in rice genetic resources, however, only a small number has been used in variety improvement programs. This study aimed to determine the genetic diversity of Indonesian rice varieties using 6K SNP markers. The study was conducted at ICABIOGRAD for DNA isolation and IRRI for SNP marker analysis. Genetic materials were 53 rice genotypes consisting of 49 varieties and 4 check genotypes. SNP markers used were 6K loci. Results showed that among the markers analyzed, only 4,606 SNPs (76.77%) were successfully read. The SNP markers covered all twelve rice chromosomes of 945,178.27 bp. The most common allele observed was GG, whereas the least allele was TG. Dendrograms of the 53 rice varieties analyzed with 4,606 SNPs demonstrated several small groups containing genotypic mixtures between indica and japonica rice, and no groups were found to contain firmly indica or japonica type. Structure analysis (K = 2) with value of 0.8 showed that the 53 rice varieties were divided into several groups and each group consisted of 4 japonica, 2 tropical japonica, 46 indica, and 1 aus rice type, respectively. IR64 and Ciherang proved to have an indica genome, while Rojolele has japonica one. Dupa and Hawara Bunar, usually grouped into tropical japonica rice, were classified as indica type, and Hawara Bunar has perfectly 100% indica type. The results of this study indicated that rice classification (indica-japonica) which is usually classified based only on morphological characters, e.g. grain and leaf shapes, is not enough and classification based on SNP markers should be considered for that purpose.</p>

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Genetic Mapping of Sheath Blight Resistance QTLs within Tropical Japonica Rice Cultivars

Crop Science ◽

10.2135/cropsci2008.03.0124 ◽

2009 ◽

Vol 49 (1) ◽

pp. 256-264 ◽

Cited By ~ 42

Author(s):

Arun Sharma ◽

Anna M. McClung ◽

Shannon R. M. Pinson ◽

Joseph L. Kepiro ◽

A. Robert Shank ◽

...

Keyword(s):

Genetic Mapping ◽

Sheath Blight ◽

Blight Resistance ◽

Japonica Rice ◽

Rice Cultivars ◽

Resistance Qtls ◽

Tropical Japonica ◽

Sheath Blight Resistance

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Use of 13C Isotope Discrimination Analysis to Quantify Distribution of Barnyardgrass and Rice Roots in a Four-Year Study of Weed-Suppressive Rice

Weed Science ◽

10.1614/ws-d-10-00145.1 ◽

2012 ◽

Vol 60 (1) ◽

pp. 133-142 ◽

Cited By ~ 16

Author(s):

David R. Gealy ◽

Karen A. K. Moldenhauer

Keyword(s):

Yield Loss ◽

Rice Yield ◽

Weed Suppression ◽

Rice Root ◽

Japonica Rice ◽

Root Mass ◽

Rice Cultivars ◽

Tropical Japonica ◽

Rice Roots ◽

13C Isotope

In a 4-yr field study, “weed suppressive” rice cultivars provided 30% greater control of barnyardgrass and sustained 44% less yield loss (relative to weed-free) compared to “nonsuppressive” tropical japonica rice cultivars. 13C analysis revealed that rice root mass predominated vertically and laterally within the soil profile of plots infested with barnyardgrass. Among all cultivars, rice roots accounted for 75 to 90% of the total root mass in samples, and this was most concentrated in the surface 5 cm of soil in the row. Barnyardgrass roots were most prevalent in the surface 5 cm between rows where they accounted for 30% of total root mass. Overall, barnyardgrass root mass was about twice as high in nonsuppressive rice compared to suppressive rice. Weed suppression by indica/tropical japonica rice crosses generally was intermediate between that of the other two rice groups. At the 0- to 5-cm depth, between-rows, barnyardgrass root mass was correlated negatively with rice height (r = −0.424), yield (r = −0.306), and weed control ratings (r = −0.524) in weedy plots. Control ratings in weedy plots also were negatively correlated with rice percent height reduction (r = −0.415) and % yield loss (r = −0.747) relative to weed-free plots, and with barnyardgrass root mass as a percent of total root mass (r = −0.612). Control ratings were positively correlated with rice yield under weed pressure (r = 0.429) but were correlated with rice root mass in-rows only (r = −0.322). Clearly, rice root mass could not have been the major cause of the differences in barnyardgrass control between cultivars.

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Rice Diversity Panel Evaluated for Agro-Morphological Diversity by Multivariate Analysis

International Journal of Current Microbiology and Applied Sciences ◽

10.20546/ijcmas.2017.611.455 ◽

2017 ◽

Vol 6 (11) ◽

pp. 3887-3901 ◽

Cited By ~ 1

Author(s):

N. Vishnu Varthini ◽

D. Sudhakar ◽

M. Raveendran ◽

S. Rajeswari ◽

S. Manonmani ◽

...

Keyword(s):

Multivariate Analysis ◽

Morphological Diversity ◽

Diversity Panel ◽

Rice Diversity

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IDENTIFICATION OF WIDE COMPATIBILITY VARIETIES IN SOME TROPICAL JAPONICA RICE

Indonesian Journal of Agricultural Science ◽

10.21082/ijas.v6n1.2005.p28-31 ◽

2013 ◽

Vol 6 (1) ◽

pp. 28 ◽

Cited By ~ 1

Author(s):

A. Hairmansis ◽

Hajrial Aswidinnoor ◽

Trikoesoemaningtyas Trikoesoemaningtyas ◽

Suwarno Suwarno

Keyword(s):

Hybrid Rice ◽

Block Design ◽

Hybrid Sterility ◽

Japonica Rice ◽

Rice Varieties ◽

Major Barrier ◽

F1 Hybrid ◽

Tropical Japonica ◽

Wide Compatibility ◽

Randomized Complete Block Design

The F1 hybrid sterility in indica/japonica crosses is the major barrier in developing hybrid rice varieties between these two diverse germplasm. The sterility problem in japonica/indica hybrids can be overcome by using wide compatibility genes. The objective of this study was to identify wide compatibility varieties (WCVs) in some tropical japonica rice. Twenty five tropical japonica varieties as male parents were crossed with indica (IR64) and japonica (Akitakomachi) testers as female parents. The crosses were planted following a randomized complete block design with three replications. Varieties having average spikelet fertility of more than 70% with both the indica and japonica testers were rated as WCVs. Result from this study showed that six tropical japonica varieties were classified as WCVs, i.e., Cabacu, Grogol, Kencana Bali, Klemas, Lampung Lawer, and Napa. Hybrid sterility is caused by partial sterility of male and female gametes. The WCVs from the present study can be used in hybrid rice breeding program to solve hybrid sterility in indica/japonica hybrids.

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The genetics underlying metabolic signatures in a brown rice diversity panel and their vital role in human nutrition

The Plant Journal ◽

10.1111/tpj.15182 ◽

2021 ◽

Author(s):

Yariv Brotman ◽

Cindy Llorente‐Wiegand ◽

Glenn Oyong ◽

Saurabh Badoni ◽

Gopal Misra ◽

...

Keyword(s):

Brown Rice ◽

Vital Role ◽

Human Nutrition ◽

Diversity Panel ◽

Rice Diversity ◽

Metabolic Signatures

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Selection Criteria, Yield Relationship with Component Traits and Grouping of Tropical Japonica, Indica Lines and Derived Hybrids of Rice (Oryza sativa L.)

SAARC Journal of Agriculture ◽

10.3329/sja.v11i2.18399 ◽

2014 ◽

Vol 11 (2) ◽

pp. 17-32

Author(s):

Sandeep Kumar Soni ◽

VK Yadav ◽

N Pratap ◽

VP Bhadana ◽

T Ram

Keyword(s):

Grain Yield ◽

Harvest Index ◽

Flag Leaf ◽

Japonica Rice ◽

Rice Varieties ◽

Tropical Japonica ◽

Coefficient Of Variability ◽

Spikelets Per Panicle ◽

Biological Yield ◽

1000 Grain Weight

Forty-five rice lines comprising of thirty derived hybrid lines obtained from ten tropical Japonica, three Indica and two national checks viz. Pusa Basmati 1121 and Sarjoo-52 were evaluated for selection parameters, yield contributing components and genetic divergence. Fifteen quantitative and three qualitative traits were studied from experimentation with randomized block design during Kharif 2011. The phenotypic coefficient of variability was higher than genotypic coefficient of variability for all of the traits. The highest estimates of broad sense heritability coupled with genetic advance in per cent of mean was recorded for spikelets per panicle, plant height followed by L:B ratio, spikelets per panicle, grains per panicle, biological yield per plant, flag leaf area, days to 50% flowering, plant height which might be due to the additive nature of gene action. Such results indicated that these traits will be reliable for the effective selection. Highly positive and significant correlation was observed at both phenotypic and genotypic level between grain yield per plant and biological yield per plant, followed by panicle bearing tillers per plant, spikelet fertility, panicle length, 1000- grain weight, grains per panicle, panicle weight, flag leaf length, spikelet per panicle, flag leaf area, kernel length, flag leaf width, days to 50% flowering, and harvest index. This relationship reflected that grain yield and aforesaid economic traits can be increased simultaneously in breeding programme to develop high yielding Indica as well as Tropical Japonica rice varieties. Whole genotypes grouped in 8 non-overlapping clusters exhibited maximum genetic diversity between clusters III i.e., TJ- 64897 × NDR-359, TJ-64897 × CSR36, TJ-64897 × PB-1 and VIII i.e., TJ-11010 × NDR359, TJ-11010 × PB-1, TJ-16081 × NDR-359, TJ-16081 × PB-1. These clusters also stand for early days to flowering, short slender, second highest harvest index and panicle bearing tillers per plant, spikelets per panicle, grains per panicle, spikelet fertility, 1000- grain weight, long bold slender, biological yield per plant, and grain yield per plant. These genotypes showing higher mean performance for aforesaid traits can be exploited for enhancing hybrid vigour of desired New Plant Type with higher number of panicle bearing tillers per plant, spikelet per panicle and grains per spike in Indica as well as Tropical Japonica rice varieties for achieving higher yield. DOI: http://dx.doi.org/10.3329/sja.v11i2.18399 SAARC J. Agri., 11(2): 17-32 (2013)

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