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Morphological, physiological and molecular characteristics of the seedless 'Hongjiangcheng' sweet orange

Horticultural Plant Journal 2023年第3期9卷 437-449页

作者： Pei Yin Wenyu Ding Haipeng Zhang Xiao Liu Hongyan Zhang Jiwu Zeng Juan Xu National Key Laboratory for Germplasm Innovation&Utilization of Horticultural Crops College of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhan 430070China College of Horticulture Henan Agricultural UniversityZhengzhou 450002China Institute of Fruit Tree Research Guangdong Academy of Agricultural SciencesGuangzhou 510640China

Seedless citrus has become one of the breeding goals due to its high edible ratio and convenience in fresh consumption and *** this study, the ‘Hongjiangcheng' sweet orange(WT) and its seedless mutant(MT) after cobalt-60 radiation were selected to study the formation metabolism of citrus seedless phenotype. Compared with WT, the MT had altered primary metabolite contents, as indicated by GC-MS analysis. The mature pollen of the MT was mostly distorted and shrunken, and the orange mutant exhibited significantly lower fertility than the WT. Through pollination experiments and paraffin sectioning of the MT, we observed self-compatibility during pollen tube germination in situ, in combination with the absence of natural parthenocarpy and arrested zygotic embryo development at the fourth week after pollination. From transcriptomic analyses of ovules in the fourth week, 815 differentially expressed genes(DEGs) were ***, according to the annotation of gene function and qRT-PCR analysis, Cs4g10930, Cs5g21900 and orange1.1t02243 were identified as candidate genes that may govern the mechanism of seedlessness. Finally, Agrobacterium-mediated transformation verified that the overexpression of Cs4g10930 and Cs5g21900 in Newhall navel orange calli inhibited embryoid production. This study provides a better understanding of seedless formation in citrus and two key genes that may play an important role in the early selection of seedless lines in citrus breeding programs.

关键词： Citrus sinensis Seed abortion transcriptomic sequencing Morphological aspects Candidate genes

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Origin and evolution of alginate-c5-mannuronan-epimerase gene based on transcriptomic analysis of brown algae

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Acta Oceanologica Sinica 2014年第2期33卷 73-85页

作者： WANG Ren WANG Xumin ZHANG Yalan YU Jun LIU Tao CHEN Shengping CHI Shan College of Marine Life Science Ocean University of China CAS Key Laboratory of Genome Sciences and Information Beijing Key Laboratory of Genome andPrecision Medicine TechnologiesBeijing Institute of GenomicsChinese Academy of Sciences Beijing Key Laboratory of Functional Genomics for Dao-di Herbs Beijing Institute of GenomicsChineseAcademy of Sciences Guangdong Province Key Laboratory of Functional Molecules in Oceanic Microorganism Zhong ShanSchool of MedicineSun Yat-Sen University

The coding product of alginate-c5-mannuronan-epimerase gene （algG gene） can catalyze the conversion of mannuronate to guluronate and determine the M/G ratio of alginate. Most of the current knowledge about genes involved in the alginate biosynthesis comes from bacterial systems. In this article, based on some algal and bacterial algG genes registered on GenBank and EMBL databases, we predicted 94 algG genes open reading frame （ORF） sequences of brown algae from the 1 000 Plant Transcriptome sequencing Project （OneKP）. By method of transcriptomic sequence analysis, gene structure and gene localization analysis, multiple sequence alignment and phylogenetic tree construction, we studied the algal algG gene family characteristics, the structure modeling and conserved motifs of AlgG protein, the origin of alginate biosyn-thesis and the variation incidents that might have happened during evolution in algae. Although there are different members in the algal algG gene family, almost all of them harbor the conserved epimerase region. Based on the phylogenetic analysis of algG genes, we proposed that brown algae acquired the alginate bio-synthesis pathway from an ancient bacterium by horizontal gene transfer （HGT）. Afterwards, followed by duplications, chromosome disorder, mutation or recombination during evolution, brown algal algG genes were divided into different types.

关键词： transcriptomic sequencing alginate-c5-mannuronan-epimerase gene gene family alginate phylogenetic analysis

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Analysis of Saccharina japonica transcriptome using the high-throughput DNA sequencing technique and its vanadium-dependent haloperoxidase gene

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Acta Oceanologica Sinica 2014年第2期33卷 27-36页

作者： LIANG Xiayuan WANG Xumin CHI Shan WU Shuangxiu SUN Jing LIU Cui CHEN Shengping YU Jun LIU Tao College of Marine Life Science Ocean University of China CAS Key Laboratory of Genome Sciences and Information Beijing Key Laboratory of Genome andPrecision Medicine TechnologiesBeijing Institute of GenomicsChinese Academy of Sciences Beijing Key Laboratory of Functional Genomics for Dao-di Herbs Beijing Institute of GenomicsChineseAcademy of Sciences Guangdong Province Key Laboratory of Functional Molecules in Oceanic Microorganism Zhong ShanSchool of MedicineSun Yat-Sen University

Saccharina is one of the most important cold-water living marine brown algal genera. In this study we ana-lyzed the transcriptome of S. japonica, which belongs to the 1 000 Plants （OneKP） Project, by using a next-generation high-throughput DNA sequencing technique. About 5.16 GB of raw data were generated, and 65 536 scaffolds with an average length of 454 bp were assembled with SOAP de novo assembly method. In total, 19 040 unigenes were identified by BLAST;25 734 scaffolds were clustered into 37 Gene ontology functional groups;6 760 scaffolds were classified into 25 COG categories, as well as 2 665 scaffolds that were assigned to 306 KEGG pathways. Majority of the unigenes exhibited more similarities to algae including brown algae and diatom than other cyanobacteria, marine diatom, and plant. Saccharina japonica has the outstanding capability to accumulate halogen such as Br and I via halogenation processes from seawater. We acquired 42 different vanadium-dependent haloperoxidases （vHPO） in S. japonica transcriptome data, including 5 segments of vanadium-dependent iodoperoxidase （vIPO） and 37 segments of vanadium-de-pendent bromoperoxidase （vBPO）. Complicated analyses of identified fulllength S. japonica vBPO1 and S. japonica vBPO2 revealed the importance of vBPO among species of brown algae and the strong relationship between marine algal vBPOs and vIPOs. This study will enhance our understanding of the biological charac-teristics and economic values of S. japonica species.

关键词： Saccharina japonica transcriptomic sequencing vanadium-dependent haloperoxidase phylogenic analysis

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The discovery of archaea origin phosphomannomutase in algae based on the algal transcriptome

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Acta Oceanologica Sinica 2014年第2期33卷 108-113页

作者： FENG Yanjing CHI Shan LIU Cui CHEN Shengping YU Jun WANG Xumin LIU Tao College of Marine Life Science Ocean University of China Guangdong Province Key Laboratory of Functional Molecules in Oceanic Microorganism Zhong Shan School of MedicineSun Yat-Sen University CAS Key Laboratory of Genome Sciences and Information Beijing Key Laboratory of Genome and Precision Medicine TechnologiesBeijing Institute of GenomicsChinese Academy of Sciences Beijing Key Laboratory of Functional Genomics for Dao-di Herbs Beijing Institute of GenomicsChineseAcademy of Sciences

Phosphomannomutase （PMM;EC 5.***.2.8） is an enzyme that catalyzes the interconversion reaction between mannose-6-phosphate and mannose-1-phosphate. However, its systematic molecular and functional in-vestigations in algae have not hitherto been reported. In this work, with the accomplishment of the 1 000 Plant Project （OneKP） in which more than 218 species of Chromista, including 19 marine phaeophytes, 22 marine rhodophytes, 171 chlorophytes, 5 cryptophytes, 4 haptophytes, and 5 glaucophytes were sequenced, we used a gene analysis method to analyze the PMM gene sequences in algae and confirm the existence of the PMM gene in the transcriptomic sequencing data of Rhodophyta and Ochrophyta. Our results showed that only one type of PMM with four conserved motifs exists in Chromista which is similar to human PMM. Moreover, the phylogenetic tree revealed that algae PMM possibly originated from archaea.

关键词： transcriptomic sequencing Chromista phosphomannomutase conserved motif phylogenetic analysis

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