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Comparative transcriptome analysis of abalone Haliotis discus hannai with green and gray egg colors

Journal of Oceanology and Limnology 2021年第1期39卷 350-361页

作者： Yanwei FENG Bo YUAN Xu JIANG Xiangquan LIU Zan LI Guohua SUN Xiaohui XU School of Agriculture Ludong UniversityYantai 264025China Shandong Provincial Key Laboratory of Restoration for Marine Ecology Shandong Marine Resource and Environment Research InstituteYantai 264006China National Demonstration Center for Experimental Fisheries Science Education Shanghai Ocean UniversityShanghai 201306China Shanghai Engineering Research Center of Aquaculture Shanghai Ocean UniversityShanghai 201306China Shandong Rice Research Institute Shandong Academy of Agricultural SciencesJinan 250100China

Haliotis discus hannai is an important marine economic species in China.Its egg color was found to be associated with economic traits,which provides a new idea for breeding.However,the molecular mechanism of the egg-color formation has not been reported.Thus,the pigment composition and comparative transcriptome analyses of H.discus hannai with green and gray egg color were conducted using high-performance liquid chromatography(HPLC)and RNA-Seq methods.Results show that individuals with green and gray eggs both possess the fucoxanthin.Lutein existed in gray-egged individuals,but not in green-egged individuals.In transcriptome analysis,272310 unigenes were received from 461162 transcripts with a mean length of 985 bp and N50 of 1524 bp,respectively.A total of 185 unigenes were identifi ed as diff erentially expressed genes(DEGs).The DEGs involved in“fl avin-containing compound metabolic process”,“melanosome”,“glutathione metabolism”,and“cytochrome b6f complex”were likely related to the formation of the egg color.Our results provide foundational information for the functional analysis of egg-color related genes and are benefi cial to the selective breeding of H.discus hannai.

关键词： Haliotis discus hannai egg color high-performance liquid chromatography transcriptome diff erentially expressed genes

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Mining Myb transcription factors related to wood development in Larix olgensis

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Journal of Forestry Research 2020年第6期31卷 2453-2461页

作者： Jiali Zhao Huanhuan Xiong Junhui Wang Hanguo Zhang Lei Zhang State Key Laboratory of Tree Genetics and Breeding Northeast Forestry UniversityHarbin 150040People’s Republic of China State Key Laboratory of Tree Genetics and Breeding Chinese Academy of ForestryBeijing 100081People’s Republic of China

Larix olgensis A.Henry is a fast-growing tree used for aff orestation in northeastern China and has great ecological and economic value.For studying developmental genes in the xylem of this species,we investigated the Myb transcription factor family,one of the largest families of transcription factors in plants,which plays an important role in the regulation of lignifi cation in plant secondary walls.By sequencing a L.olgensis cDNA library using the Illumina HiSeq2500 high-throughput sequencing platform,we obtained 58,683 unigene sequences,of which 16,554 unigenes were longer than 1000 bp,accounting for 28.2%of the total database.The alignment of these genes with the GO,COG,KEGG,Swiss-Prot and NR databases resulted in annotated 29,350 unigenes.We obtained a total of 1460 differentially expressed genes,of which 453 were upregulated and 1007 were downregulated at the two developmental stages analyzed.The gene annotations showed a wide range of biological functions and metabolic pathways.The 10 Myb transcription factors that were obtained from the diff erentially expressed genes were analyzed by real-time quantitative PCR(qRT-PCR).The results showed that four Myb transcription factors may be associated with xylem development in L.olgensis.Due to the large genome size of conifers,genomics research on these species has lagged behind that for other plant groups.Our data provide the basis for further studies on xylem development in L.olgensis.

关键词： Larix olgensis RNA-seq Myb transcription factors diff erentially expressed genes

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Eyes of diff ering colors in Alvinocaris longirostris from deep-sea chemosynthetic ecosystems: genetic and molecular evidence of its formation mechanism

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Journal of Oceanology and Limnology 2021年第1期39卷 282-296页

作者： Qian XIN Min HUI Chaolun LI Zhongli SHA Institute of Oceanology Chinese Academy of SciencesQingdao 266071China Center for Ocean Mega-Science Chinese Academy of SciencesQingdao 266071China Laboratory for Marine Biology and Biotechnology Qingdao National Laboratory for Marine Science and TechnologyQingdao 266237China University of Chinese Academy of Sciences Beijing 100049China

Coloration is an important phenotypic trait for multiple adaptive functions.It is interesting to fi nd white-eye(AW)and orange-eye(AO)phenotypes in the shrimp Alvinocaris longirostris inhabiting the deep-sea cold seep and hydrothermal vent areas of the northwestern Pacifi c.By comparative transcriptome analyses,1491 diff erentially expressed genes(DEGs)were identified between AW and AO.Among them,many DEGs were associated with immunity,antioxidation,and detoxifi cation.Two signifi cant enzyme encoding genes,xanthine dehydrogenase,and tryptophan oxidase involved in pigment biosynthesis pathways were up-regulated in AW and AO,respectively,which might be related to the diff erences of white and orange eye phenotypes.Moreover,single nucleotide polymorphism(SNP)calling detected that genotypes of 28 SNP distributing in 14 unigenes were completely diff erent between AW and AO.Particularly,there were three and two non-synonymous mutations in immune genes crustin Pm5 and antimicrobial peptide,respectively.Results indicate that the diff erence in eye color is probably resulted from immune response to variable micro-environmental stressors encountered in the dispersal process of the shrimps,such as symbiotic microbes,pathogens,and toxic substances,and might be genetically fi xed at last.The suggested pathway preliminarily explained the formation mechanism of diff erent eye phenotypes in Alvinocaridid shrimps,providing a basis for further study on adaptive evolution of eyes in deep-sea chemosynthetic faunas.

关键词： alvinocaridid shrimps cold seep and hydrothermal vent diff erentially expressed genes eye color single nucleotide polymorphism(SNP)mutation transcriptome

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