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Genomics-based plant germplasm research(GPGR)

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The Crop Journal 2017年第2期5卷 166-174页

作者： Jizeng Jia Hongjie Li Xueyong Zhang Zichao Li lijuan qiu Key Laboratory of Crop Germplasm & Biotechnology Ministry of AgricultureInstitute of Crop ScienceChinese Academy of Agricultural SciencesThe National Key Facility for Crop Gene Resources and Genetic ImprovementNFCRGI Beijing Key Laboratory of Crop Genetic Improvement Key Laboratory of Crop Heterosis and UtilizationMinistry of EducationChina Agricultural University

Plant germplasm underpins much of crop genetic improvement. Millions of germplasm accessions have been collected and conserved ex situ and/or in situ, and the major challenge is now how to exploit and utilize this abundant resource. Genomics-based plant germplasm research （GPGR） or ＂Cenoplasmics＂ is a novel cross-disciplinary research field that seeks to apply the principles and techniques of genomics to germplasm research. We describe in this paper the concept, strategy, and approach behind GPGR, and summarize current progress in the areas of the definition and construction of core collections, enhancement of germplasm with core collections, and gene discovery from core collections. GPGR is opening a new era in germplasm research. The contribution, progress and achievements of GPGR in the future are predicted.

关键词： Plant germplasm Genomics Genomics-based plant germplasm research(GPGR) Genoplasmics

Genetic diversity of Chinese summer soybean germplasm revealed by SSR markers

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Chinese Science Bulletin 2005年第6期50卷 526-535页

作者： XIE Hua GUAN Rongxia CHANG Ruzhen qiu lijuan Institute of Crop Germplasm Resources Chinese Academy of Agri-cultural Sciences/Key Laboratory of Crop Germplasm&Biotechnol-ogyMinistry of AgricultureBeijing 100081China Beijing Agro-biotechnology Research Center Beijing 100089China

There are abundant soybean germplasm in China. In order to assess genetic diversity of Chinese sum- mer soybean germplasm, 158 Chinese summer soybean ac- cessions from the primary core collection of G. max were used to analyze genetic variation at 67 SSR loci. A total of 460 alleles were detected, in which 414 and 419 alleles oc- curred in the 80 Huanghuai and the 78 Southern summer accessions, respectively. The average number of alleles per locus was 6.9 for all the summer accessions, and 6.2 for both Huanghuai and Southern summer accessions. Marker diver- sity (D) per locus ranged from 0.414 to 0.905 with an average of 0.735 for all the summer accessions, from 0.387 to 0.886 with an average of 0.708 for the Huanghuai summer acces- sions, and from 0.189 to 0.884 with an average of 0.687 for the Southern summer accessions. The Huanghuai and Southern summer germplasm were different in the specific alleles, allelic-frequencies and pairwise genetic similarities. UPGMA cluster analysis based on the similarity data clearly separated the Huanghuai from Southern summer soybean accessions, suggesting that they were different gene pools. The results indicate that Chinese Huanghuai and Southern summer soybean germplasm can be used to enlarge genetic basis for developing elite summer soybean cultivars by ex- changing their germplasm.

关键词：遗传多样性大豆胚质农作物 NDA 核酸基因

Superhydrophobic, mechanically flexible and recyclable reduced graphene oxide wrapped sponge for highly efficient oil/water separation

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Frontiers of Chemical Science and Engineering 2018年第3期12卷 390-399页

作者： lijuan qiu Ruiyang Zhang Ying Zhang Chengjin Li Qian Zhang Ying Zhou State Key Laboratory of Oil and Gas Reservoir Geology and Exploitation Southwest Petroleum University Chengdu 610500 China The Center of New Energy Materials and Technology School of Materials Science and Engineering Southwest Petroleum University Chengdu 610500 China

Water pollution has become an urgent issue for our modem society, and it is highly desirable to rapidly deal with the water pollution without secondary pollution. In this paper, we have prepared a reduced graphene oxide （RGO） wrapped sponge with superhydrophobicity and mechanically flexibility via a facile low-temperature thermal treatment method under a reducing atmosphere. The skeleton of this sponge is completely covered with RGO layers which are closely linked to the skeleton. This sponge has an abundant pore structure, high selectivity, good recyclability, low cost, and outstanding adsorption capacity for floating oil or heavy oil underwater. In addition, this sponge can maintain excellent adsorption performance for various oils and organic solvents over 50 cycles by squeezing, and exhibits extremely high separa- tion efficiencies, up to 6 × 10^6 and 3.6 × 10^6 L·m^-3.h^-1 in non-turbulent and turbulent water/oil systems, respec- tively. This superhydrophobic adsorbent with attractive properties may find various applications, especially in large-scale removal of organic contaminants and oil spill cleanup.

关键词： superhydrophobicity mechanically flexibility water/oil separation reduced graphene oxide wrapped sponge

Ideal type 1 is caused by a point mutation in the a-tubulin gene that affects microtubule arrangement in soybean

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The Crop Journal 2023年第3期11卷 713-722页

作者： Bohong Su Yong Guo Zhongfeng Li Huawei Gao Zhongyan Wei lijuan qiu College of Agriculture Northeast Agricultural UniversityHarbin 150030HeilongjiangChina National Key Facility for Crop Gene Resources and Genetic Improvement Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China College of Agronomy Henan Agricultural UniversityZhengzhou 450002HenanChina State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products Key Laboratory of Biotechnology in Plant Protection of MARA of China and Zhejiang ProvinceInstitute of Plant VirologyNingbo UniversityNingbo 315211ZhejiangChina

Plant architecture is a target of crop *** soybean mutant ideal type 1(it1)displays a pleiotropic phenotype characterized by compact plant architecture,reduced plant height,shortened petioles,wrinkled leaves,and indented *** analysis revealed that the pleiotropic phenotype was controlled by an incomplete dominant *** characterized the cellular phenotypes of it1 and positionally cloned the it1 *** morphogenetic analysis of the it1 mutant revealed an excess of xylem cells and expanded phloem,and polygonal pavement *** cloning showed that the phenotype was caused by a G-to-A mutation in the second exon of the a-tubulin gene(Glyma.05G157300).The mutation altered microtubule arrangement in pavement cells,changing their *** of Gmit1 resulted in an it1-like phenotype and polygonal pavement cells and microtubules of overexpressors were parallel or slightly *** suppressor mutants able to suppress the phenotype of it1 were obtained by EMS mutagenesis in the it1 *** these mutants carried an additional mutation in the it1 *** results suggest that the pleiotropic phenotype of it1 is caused by the mutation in the atubulin gene.

关键词： Soybean Plant architecture a-Tubulin Microtubules Intragenic mutations

Molecular characterization of GmNHX2,a Na^+/H^+ antiporter gene homolog from soybean,and its heterologous expression to improve salt tolerance in Arabidopsis

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Chinese Science Bulletin 2009年第19期54卷 3536-3545页

作者： ZHOU GuoAn GUAN RongXia LI YingHui CHANG RuZhen qiu lijuan National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI)/Key Lab of Germplasm & Biotechnology (MOA) Institute of Crop Science Chinese Academy of Agricultural Sciences Beijing 100081 China

Na+/H+ antiporters have been well documented to enhance plant salt tolerance by regulating cellular ion homeostasis. Here, a putative Na+/H+ antiporter gene homolog GmNHX2 from soybean was cloned and predicted to encode a protein of 534 amino acids with 10 putative transmembrane domains. GmNHX2 was expressed in all soybean plant tissues but enriched in roots and its expression was induced by NaCl and polyethylene glycol (PEG) treatments. GmNHX2 exhibits greater sequence similarity with LeNHX2 and AtNHX6 than that of AtNHX1 and AtSOS1. Although phylogenetic analysis clustered GmNHX2 with organellar (tonoplast and vesicles) antiporters, the GmNHX2-EGFP (enhanced green fluorescent protein) fusion protein was possibly localized in the plasma membrane or organelle membrane of transgenic plant cells. Furthermore, transgenic Arabidopsis plants expressing GmNHX2 were more tolerant to high NaCl concentrations during germination and seedling stages when compared with wild-type plants. These results suggest that GmNHX2 is a membrane Na+/H+ antiporter and may function to regulate ion homeostasis under salt stress.

关键词：植物耐盐基因工程盐胁迫离子分布植物组织 GmNHX2

QTL mapping of qSCN3-1 for resistance to soybean cyst nematode in soybean line Zhongpin 03-5373

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The Crop Journal 2021年第2期9卷 351-359页

作者： Lei Yang Yu Tian Yulin Liu Jochen C.Reif Yinghui Li lijuan qiu The National Key Facility for Crop Gene Resources and Genetic Improvement(NFCRI)/Key Lab of Germplasm Utilization(MOA) Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China College of Forestry Northwest A&F UniversityYangling 712100ShaanxiChina Department of Breeding Research Leibniz Institute of Plant Genetics and Crop Plant Research(IPK)GaterslebenGermany

Soybean cyst nematode(SCN,Heterodera glycines Ichinohe)is one of the most economically destructive *** soybean line Zhongpin03-5373(ZP),which combines resistance genes from several donors,is highly resistant to SCN race 3(SCN3).In our previous study,two QTL(rhg1 and GmSNAP11)were identified in a population of recombinant inbred lines derived from a cross between ZP and the susceptible parent Zhonghuang *** two QTL explained around one-third of the resistance,suggesting the presence of further QTL contributing to SCN *** the present study,we used an improved version of the geneticmap comprising the previously applied 1062 molecular markers and 47 newly developed InDel(insertion-deletion)*** improved map revealed a novel locus contributing to SCN3 resistance:qSCN3-1,flanked by InDelmarker InDel1-7 and SNPmarker Map-0047,explained 4.55%of the phenotypic variance for resistance to SCN3 and was not involved in digenic epistatic interaction with rhg1 and *** of Map-0047_CAPS(a CAPS marker developed for Map-0047)and InDel1-7 were significantly associated with SCN3 resistance in a panel of 209 resistant and susceptible *** further allele-combination analysis for three functional markers representing three cloned resistance genes(rhg1,Rhg4,andGmSNAP11)and twomarkers flanking qSCN3-1,we found that adding the resistance allele of qSCN3-1 greatly increased soybean resistance to SCN,even in diverse genetic *** qSCN3-1 locus will be useful for marker-assisted polygene pyramid breeding and should be targeted for the future identification of candidate genes.

关键词： Allelic combination InDel Pyramid Soybean cyst nematode

SPP-extractor:Automatic phenotype extraction for densely grown soybean plants

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The Crop Journal 2023年第5期11卷 1569-1578页

作者： Wan Zhou Yijie Chen Weihao Li Cong Zhang Yajun Xiong Wei Zhan Lan Huang Jun Wang lijuan qiu College of Computer Science Yangtze UniversityJingzhou 434023HubeiChina College of Agriculture Yangtze UniversityJingzhou 434025HubeiChina National Key Facility for Gene Resources and Genetic Improvement/Institute of Crop Sciences Chinese Academy of Agricultural SciencesBeijing 100081China MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River(Co-construction by Ministry and Province) College of AgricultureYangtze UniversityJingzhou 434025HubeiChina

Automatic collecting of phenotypic information from plants has become a trend in breeding and smart *** mature soybean plants at the harvesting stage,which are dense and overlapping,we have proposed the SPP-extractor(soybean plant phenotype extractor)algorithm to acquire phenotypic ***,to address the mutual occultation of pods,we augmented the standard YOLOv5s model for target detection with an additional attention *** resulting model could accurately identify pods and stems and could count the entire pod set of a plant in a single ***,considering that mature branches are usually bent and covered with pods,we designed a branch recognition and measurement module combining image processing,target detection,semantic segmentation,and heuristic *** results on real plants showed that SPP-extractor achieved respective R^(2) scores of 0.93–0.99 for four phenotypic traits,based on regression on manual measurements.

关键词： Soybean phenotype Branch length Computer vision A*algorithm Phenotype acquisition

Gm Ms1 encodes a kinesin-like protein essential for male fertility in soybean(Glycine max L.)

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Journal of Integrative Plant Biology 2021年第6期63卷 1054-1064页

作者： Muhammad Nadeem Andong Chen Huilong Hong Dongdong Li Jiajia Li Duo Zhao Wei Wang Xiaobo Wang lijuan qiu School of Agronomy Anhui Agricultural UniversityHefei 230036China The National Key Facility for Crop Gene Resources and Genetic Improvement(NFCRI)/Key Laboratory of Crop Gene Resource and Germplasm Enhancement(MOA) Institute of Crop SciencesThe Chinese Academy of Agricultural SciencesBeijing 100081China

The application of heterosis is a promising approach for greatly increasing yield in soybean(Glycine max L.). Nuclear male sterility is essential for hybrid seed production and the utilization of heterosis. Here we report the cloning of the gene underlying the soybean male-sterile mutant ms-1,which has been widely used for recurrent selection in soybean breeding programs. We initially delimited the ms1 locus to a 16.15 kb region on chromosome13, based on SLAF_BSA sequencing followed by genotyping of an F_(2) population segregating for the locus. Compared with the same region in fertile plants, the mutant region lacks a sequence of approximately 38.7 kb containing five protein-coding genes, including an ortholog of the kinesin-like protein gene NACK2, named Gm Ms1. The Gm Ms1 knockout plants generated via CRISPR/Casmediated gene editing displayed a complete malesterile phenotype. Metabolic profiling showed that fertile anthers accumulated starch and sucrose normally, whereas sterile anthers had higher anthocyanin levels and lower flavonoid levels and lower antioxidant enzyme activities. These results provide insights into the molecular mechanisms governing male sterility and demonstrate that Gm Ms1 could be used to create male-sterile lines through targeted mutagenesis. These findings pave the way for designing seed production technology and an intelligent male-sterile line system to utilize heterosis in soybean.

关键词： metabolome sequencing nuclear male sterility soybean third generation sequencing transcriptome sequencing

Involvement of sulfur assimilation in the low β subunit content of soybean seed storage protein revealed by comparative transcriptome analysis

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The Crop Journal 2019年第4期7卷 504-515页

作者： Xi Zhang Ruixin Xu Wei Hu Wan Wang Dezhi Han Fan Zhang Yongzhe Gu Yong Guo Jun Wang lijuan qiu College of Agriculture Yangtze University Jingzhou 434025 Hubei China National Key Facility for Gene Resources and Genetic Improvement Institute of Crop Sciences Chinese Academy of Agricultural Sciences Beijing 100081 China Soybean Research Center Heihe Institute Heilongjiang Academy of Agricultural Sciences Heihe 100142 Helongjiang China

The β subunit of soybean [Glycine max (L.) Merr.] seed storage protein is of great significance in sulfur-containing amino acid balance and soybean processing properties. The objective of this study was to elucidate the relationship between the β subunit and sulfur-containing amino acid composition, and the potential regulatory mechanism. The β subunit was independently accumulated in comparison with other major subunits (α/α′, acidic, basic, and A3) during seed filling, and a low level of β subunit content (BSC) was formed during the accumulation process. In low-BSC mature seeds, crude protein, oil content, and fatty acid composition were not changed, but sulfur-containing amino acids (Cys + Met) in the low- BSC seeds increased significantly (by 31.5%), suggesting that an internal regulatory mechanism within seed might be responsible for the rebalance of seed protein composition and that sulfur assimilation might be deeply involved in β subunit accumulation. Transcriptomic analysis revealed that genes involved in anabolism of cysteine, methionine, and glutathione were up-regulated but those involved in the catabolism of these compounds were down-regulated, suggesting a relationship between the elevation of methionine and glutathione and low BSC. Our study sheds light on seed composition in low BSC lines and on the potential molecular regulatory mechanism of β subunit accumulation, broadening our understanding of soybean seed protein synthesis and its regulation.

关键词： Soybean β subunit Transcriptome analysis Sulfur-containing amino acids Sulfur assimilation