Genetic Basis Dissection for Eating and Cooking Qualities of Japonica Rice in Northeast China

The japonica rice in Northeast China is famous because of its high quality. Eating and cooking qualities (ECQs) are the most important factors that determine cooked rice quality. However, the genetic basis of ECQ of japonica varieties in Northeast China needs further study. In this study, 200 japonica varieties that are widely distributed in Northeast China were collected to evaluate the physicochemical indices of grain ECQs. The distribution of each trait was concentrated without large variations. Correlation analysis indicated that gel consistency (GC) had a significantly negative correlation with gelatinization temperature (GT). By integrating various analyses including kinship calculation, principal component analysis (PCA), linkage disequilibrium (LD) analysis, and original parent investigation, we found that the japonica varieties in Northeast China exhibited a narrow genetic basis. An association study for grain ECQs was performed and eight quantitative trait loci (QTLs) were detected. ALK was the major locus that regulated GT and also significantly affecting GC. Through the linkage disequilibrium (LD) and expression pattern analysis, one possible candidate gene (LOC_Os02g29980) was predicted and required further research for validation. Additionally, a different allele of Wx was identified in the variety CH4126, and ALK was not fixed in these japonica varieties. These results further elucidate the genetic basis of ECQs of japonica varieties in Northeast China and provide local breeders some assistance for improving ECQs of rice grain in rice breeding.

Download Full-text

Development of Advanced Physical Measurement Method for Individual Cooked Rice. Part 2. Palatability Evaluation for Japonica Rice Grains based on Multiple Physical Measurements of Individual Cooked Rice Grain.

Nippon Shokuhin Kagaku Kogaku Kaishi ◽

10.3136/nskkk.45.398 ◽

1998 ◽

Vol 45 (7) ◽

pp. 398-407 ◽

Cited By ~ 25

Author(s):

Hiroshi OKADOME ◽

Hidechika TOYOSHIMA ◽

Mitsuru SUTO ◽

Ikuo ANDO ◽

Kenji NUMAGUCHI ◽

...

Keyword(s):

Measurement Method ◽

Rice Grain ◽

Japonica Rice ◽

Physical Measurement ◽

Rice Grains ◽

Cooked Rice ◽

Physical Measurements

Download Full-text

Genetic Basis Dissection of Heterosis in Japonica Rice (Oryza sativa L.)

ACTA AGRONOMICA SINICA ◽

10.3724/sp.j.1006.2012.02147 ◽

2013 ◽

Vol 38 (12) ◽

pp. 2147-2161

Author(s):

Jian-Hua JIANG ◽

Qiang-Ming LIU ◽

Chao LU ◽

Hong ZHANG ◽

Xiao-Li LIU ◽

...

Keyword(s):

Oryza Sativa ◽

Genetic Basis ◽

Japonica Rice

Download Full-text

Can Gene Expression Pattern Analysis Predict Recurrence in Node-Negative Breast Cancer

10.21236/ada427708 ◽

2002 ◽

Author(s):

Peter O'Connell

Keyword(s):

Breast Cancer ◽

Gene Expression ◽

Expression Pattern ◽

Pattern Analysis ◽

Gene Expression Pattern ◽

Node Negative ◽

Expression Pattern Analysis ◽

Node Negative Breast Cancer

Download Full-text

Efficacy of Irrigation Interval after Anthesis on Grain Quality, Alkali Digestion, and Gel Consistency of Rice

Agriculture ◽

10.3390/agriculture11040325 ◽

2021 ◽

Vol 11 (4) ◽

pp. 325

Author(s):

Ramin Rayee ◽

Tran Dang Xuan ◽

Tran Dang Khanh ◽

Hoang-Dung Tran ◽

Kifayatullah Kakar

Keyword(s):

Protein Content ◽

Grain Quality ◽

Cooking Quality ◽

Amylose Content ◽

Rice Grain ◽

Gelatinization Temperature ◽

Rice Varieties ◽

Irrigation Interval ◽

Gel Consistency ◽

Alkali Digestion

The management of amylose and protein contents and cooking quality are the main challenges in rice macronutrients and quality improvement. This experiment was conducted to examine the rice grain quality, alkali digestion, and gel consistency responses to irrigation interval after anthesis. Three rice varieties (K1, K3, and K4) were subjected to different irrigation intervals (1, 2, and 3 d) after anthesis. The findings of this study showed that the protein content was markedly increased from 6.53–6.63% to 9.93–10.16%, whilst the amylose content was decreased significantly from 22.00–22.43% to 16.33–17.56% under stressed treatments at irrigation intervals, whilst the quantity of fatty acids was not affected. The 3-d irrigation interval recorded the highest protein content but the lowest amylose value. In addition, this treatment shows lower gelatinization temperature, but it is negatively associated with hard gel consistency under irrigation interval. This study highlights that the water management following a 3-d irrigation interval from anthesis is a useful and simple treatment to improve rice nutrients and grain cooking quality.

Download Full-text

Ecological Risk Assessment and Contamination History of Heavy Metals in the Sediments of Chagan Lake, Northeast China

Water ◽

10.3390/w13070894 ◽

2021 ◽

Vol 13 (7) ◽

pp. 894

Author(s):

Panfeng Liu ◽

Chaojie Zheng ◽

Meilan Wen ◽

Xianrong Luo ◽

Zhiqiang Wu ◽

...

Keyword(s):

Heavy Metals ◽

Principal Component Analysis ◽

Ecological Risk ◽

Surface Sediment ◽

Northeast China ◽

Principal Component ◽

Potential Ecological Risk ◽

210Pb Dating ◽

History Of ◽

Chagan Lake

The study deals with the spatio-temporal distribution of heavy metals in the sediments of Chagan lake, Northeast China. The pollution history of heavy metals is studied simultaneously through the 210Pb dating method by analyzing the characteristic of As, Hg, Cd, Cr, Ni, Cu, Pb, and Zn concentration-depth profiles. The potential ecological risk index (RI) and geo-accumulation index (Igeo) were used to evaluate the contamination degree. Principal component analysis (PCA), based on the logarithmic transformation and isometric log-ratio (ilr) transformed data, was applied with the aim of identifying the sources of heavy metals. The element concentrations show that the heavy metals are enriched in the surface sediment and sediment core with a varying degree, which is higher in the surficial residue. The results of Igeo indicate that the Cd and Hg in the surface sediment have reached a slightly contaminated level while other elements, uncontaminated. The results of RI show that the study area can be classified as an area with moderate ecological risk in which Cd and Hg mostly contribute to the overall risk. For the sediment core, the 210Pb dating results accurately reflect the sedimentary history over 153 years. From two evaluation indices (RI and Igeo) calculated by element concentration, there is no contamination, and the potential ecological risk is low during this period. The comparative study between raw and ilr transformed data shows that the closure effect of the raw data can be eliminated by ilr transformation. After that, the components obtained by robust principal component analysis (RPCA) are more representative than those obtained by PCA, both based on ilr transformed dataset, after eliminating the influence of outliers. Based on ilr transformed data with RPCA, three primary sources could be inferred: Cr, Ni, As, Zn, and Cu are mainly derived from natural sources; the main source of Cd and Hg are associated with agricultural activities and energy development; as for Pb, it originated from traffic and coal-burning activities, which is consistent with the fact that the development of tourism, fishery, and agriculture industries has led to the continuous increasing levels of anthropogenic Pb in Chagan Lake. The summarized results and conclusions will undoubtedly enhance the governmental awareness of heavy metal pollution and facilitate appropriate pollution control measures in Chagan Lake.

Download Full-text

Comparative expression pattern analysis of WUSCHEL-related homeobox 2 (WOX2) and WOX8/9 in developing seeds and somatic embryos of the gymnosperm Picea abies

New Phytologist ◽

10.1111/j.1469-8137.2010.03336.x ◽

2010 ◽

Vol 188 (1) ◽

pp. 122-135 ◽

Cited By ~ 49

Author(s):

Joakim Palovaara ◽

Henrik Hallberg ◽

Claudio Stasolla ◽

Inger Hakman

Keyword(s):

Picea Abies ◽

Expression Pattern ◽

Somatic Embryos ◽

Pattern Analysis ◽

Developing Seeds ◽

Expression Pattern Analysis

Download Full-text

Comparative Genomic Analysis of TCP Genes in Six Rosaceae Species and Expression Pattern Analysis in Pyrus bretschneideri

Frontiers in Genetics ◽

10.3389/fgene.2021.669959 ◽

2021 ◽

Vol 12 ◽

Author(s):

Yu Zhao ◽

Xueqiang Su ◽

Xinya Wang ◽

Mengna Wang ◽

Xujing Chi ◽

...

Keyword(s):

Expression Pattern ◽

Prunus Avium ◽

Pattern Analysis ◽

Evolutionary Relationship ◽

Comparative Genomic ◽

Accumulation Pattern ◽

Stone Cell ◽

Expression Pattern Analysis ◽

Rosaceae Species ◽

Different Tissues

TCP is a plant-specific transcription factor that plays an important role in flowering, leaf development and other physiological processes. In this study, we identified a total of 155 TCP genes: 34 in Pyrus bretschneideri, 19 in Fragaria vesca, 52 in Malus domestica, 19 in Prunus mume, 17 in Rubus occidentalis and 14 in Prunus avium. The evolutionary relationship of the TCP gene family was examined by constructing a phylogenetic tree, tracking gene duplication events, performing a sliding window analysis. The expression profile analysis and qRT-PCR results of different tissues showed that PbTCP10 were highly expressed in the flowers. These results indicated that PbTCP10 might participated in flowering induction in pear. Expression pattern analysis of different developmental stages showed that PbTCP14 and PbTCP15 were similar to the accumulation pattern of fruit lignin and the stone cell content. These two genes might participate in the thickening of the secondary wall during the formation of stone cells in pear. Subcellular localization showed that PbTCPs worked in the nucleus. This study explored the evolution of TCP genes in six Rosaceae species, and the expression pattern of TCP genes in different tissues of “Dangshan Su” pear. Candidate genes related to flower induction and stone cell formation were identified. In summary, our research provided an important theoretical basis for improving pear fruit quality and increasing fruit yield by molecular breeding.

Download Full-text

Dissection of the genetic basis of oil content in Chinese peanut cultivars through association mapping

10.21203/rs.3.rs-17113/v2 ◽

2020 ◽

Author(s):

Nian Liu ◽

Li Huang ◽

Weigang Chen ◽

Bei Wu ◽

Manish K. Pandey ◽

...

Keyword(s):

Association Mapping ◽

Ssr Markers ◽

Oil Content ◽

Genetic Basis ◽

Principal Component ◽

Primary Sources ◽

Phenotypic Variance ◽

Mapping Panel ◽

Stable Association ◽

Faster Development

Abstract Background: Peanut is one of the primary sources for vegetable oil worldwide, and enhancing oil content is the main objective in several peanut breeding programs of the world. Tightly linked markers are required for faster development of high oil content peanut varieties through genomics-assisted breeding (GAB), and association mapping is one of the promising approaches for discovery of such associated markers. Results: An association mapping panel consisting of 292 peanut varieties extensively distributed in China was phenotyped for oil content and genotyped with 583 polymorphic SSR markers. These markers amplified 3663 alleles with an average of 6.28 alleles per locus. The structure, phylogenetic relationship, and principal component analysis (PCA) indicated two subgroups majorly differentiating based on geographic regions. Genome-wide association analysis identified 12 associated markers including one (AGGS1014_2) highly stable association controlling up to 9.94% phenotypic variance explained (PVE) across multiple environments. Interestingly, the frequency of the favorable alleles for 12 associated markers showed a geographic difference. Two associated markers (AGGS1014_2 and AHGS0798) with 6.90-9.94% PVE were verified to enhance oil content in an independent RIL population and also indicated selection during the breeding program. Conclusion: This study provided insights into the genetic basis of oil content in peanut and verified highly associated two SSR markers to facilitate marker-assisted selection for developing high-oil content breeding peanut varieties.

Download Full-text