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A high-resolution cucumber cytogenetic map integrated with the genome assembly

A high-resolution cucumber cytogenetic map integrated with t...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者： SUN Jian-Ying ZHANG Zhong-Hua ZONG Xu HUANG San-Wen LI Zong-Yun HAN Yong-Hua Institute of Integrative Plant Biology School of Life ScienceJiangsu Normal University Key Laboratory of Horticultural Crops Genetic Improvement of Ministry of Agriculture Institute of Vegetables and FlowersChinese Academy of Agricultural Sciences

High-resolution cytogenetic map can provide not only important biological information on genome organization but also solid foundation for genetic and genomic *** progress in the molecular and cytogenetic studies has created the basis for developing the cytogenetic map in cucumber(Cucumis sativus L.).Here,the cytogenetic maps of four cucumber chromosomes (chromosomes 1,3-5) were constructed by fluorescence in situ hybridization(FISH) analysis on cucumber pachytene *** with our previously constructed cytogenetic maps of three cucumber chromosomes(chromosomes 2,6-7),cucumber has a complete cytogenetic map with 76 anchoring points between the genetic,the cytogenetic and the draft genome assembly maps To compare our pachytene FISH map directly to the,we used a standardized map unit—relative map position(RMP) to produce the comparative map *** alignments allowed a global view of the relationship of genetic and physical distances along each cucumber chromosome,and accuracy and coverage of the draft genome assembly *** demonstrated a good correlation between positions of the markers in the linkage and physical maps,and essentially complete coverage of chromosome arms by the draft genome *** study not only provides essential information for the improvement of sequence assembly but also offers molecular tools for cucumber genomics research,comparative genomics and evolutionary study.

关键词： Cucumber Cytogenetic map Genetic linkage map Draft genome assembly Fluorescence in situ hybridization

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Biochemical characterization of the mitochondrial tRNAHis T12201C mutation associated with nonsyndromic deafness

Biochemical characterization of the mitochondrial tRNAHis T1...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者：龚莎莎严庆丰管敏鑫 Department of Genetics College of Life SciencesZhejiang University

We report here the biochemical characterization of the deafness-associated mitochondrial tRNAHiS T12201C mutation,including the measurements of the rates of overall, substrate-promoted respiration,the adenosine triphosphate（ATP） production and generation of reactive oxygen species（ROS）.We constructed cybrid cell lines by transferring mitochondria from lymphoblastoid cell lines,derived from four affected matrilineal relatives of the Chinese pedigree carried with this mutation and four control subjects belongs to the same haplogroup,into human mtDNA-less（ρ） *** T12201C mutation destabilises a highly conservative base-pairing （5A-68U） on the acceptor stem of *** carrying this mutation exhibited decrease basal oxygen consumption rate（OCR）,ATP-iinked OCR and maximal OCR compared with control cell lines,showing that the endogenous respiration was strongly *** the maximal OCR was tightly associated with the capacity of the three respiration complex,different substrate dependent respiration was *** activity of the three respiration complex was markedly decreased in the T12201C mutation cell lines in contrast to the ***,the deficient lowly affect the intact ATP generation,whereas,the oxidative ATP production was significantly *** ROS generated by the cybrids carrying the T12201C mutation increased after HO *** data convincingly demonstrate the pathogenic mechanism leading to the dysfunctions of cochlear cells. Furthermore,we should detect the steady-state level of tRNA and the rate of mitochondrial translation,which may apparently contribute to impaired oxidative phosphorylation.

关键词： Mitochondria tRNAHis T12201C mutation Oxygen Consumption Rate ATP reactive oxygen species nonsyndromic deafness

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The regulatory effect of pyruvate orthophosphate dikinase (PPDK) on the maize C4 photosynthesis

The regulatory effect of pyruvate orthophosphate dikinase (P...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者： Pinghua Li Yanyan Liu Fuquan Gong Rita Giuliani Wagner L.Araujo Lauren Dedow Thomas P.Brutnell Institute of Tropical Biosciences & Biotechnology Chinese Academy of Tropical Agriculture Sciences College of Plant Science & technology Huazhong Agriculture University College of Agriculture Hainan University School of Biological Sciences Molecular Plant SciencesWashington State University Max-Planck-lnstitute of Molecular Plant Physiology Boyce Thompson Institute Cornell University

C4 plants,like maize,display a higher photosynthetic efficiency,lower CO compensation point and reduced photorespiration relative to C plants under hot,dry conditions These benefits provide C crops with a distinct growth advantage,better water use efficiency and higher rates of biomass *** important aim of our current research is gain a deeper understanding of the mechanisms that regulate C *** application of this work would be to engineer C crops with C traits thus improving *** orthophosphate dikinase（PPDK） is a key and rate-limiting enzyme in maize C photosynthesis,which catalyzes the regeneration of the substrate phosphoenolpyruvate（PEP） for assimilation of CO by PEP *** the biochemical function of PPDK is well understood,little is known of the transcriptional network regulating *** this study,we characterized several transposon insertions in the maize PPDK *** detailed histological,physiological and molecular analyses（RNA-seq,GC-MS） we explore the PPDK regulatory network and examine the physiological consequences of a loss of PPDK function.

关键词： Pyurvate orthophosphate dikinase maize C4 photosynthesis RNA-seq

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A Novel Mutation in Bone Morphogenetic Protein 15 Gene is Associated with Increased Litter Size in Xinjiang Cele Black Sheep

A Novel Mutation in Bone Morphogenetic Protein 15 Gene is As...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者： Hongcai Shi Zhigang Niu Lijun Feng Jie Bai Miniresha Dan Yang Key Lab Of Reproduction & Breeding Biotechnology of Grass Feeding Livestock of MOA P.R.C.Xinjiang Academy of Animal Science Animal Husbandry and Veterinary Station of Shihezi Institute of Animal Husbandry and Veterinary of Agriculture Science of Henan Animal and Veterinary Station of Cele

Sequence analysis showed there are two new mutations(B1 and E2+755) in the coding region of BMP15 gene in Xinjiang Cele Black *** mutation B1 missed CTT base in the exon 1 at position 28-30,The other mutation,E2+755,is a T to C base change in position 755 of exon 2,resulting in Leucine being replaced by Proline at this position in BMP15 protein(L253P) The characterization of BMPI5 gene suggested that the B1 does not influent litter size in Cele Black *** heterozygous with(B+) of L253P had significant different higher litter size from that of the wild genotype ewes(P<0.05),Comprehensive analysis suggests that L253P is a mutation affecting fecundity in Cele Black Sheep.

关键词： Xinjiang Cele Black Sheep Bone Morphogenetic Protein 15 Gene Mutation Litter Size

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lrys:De Novo Assembly and Structural Variation Detection in Complex Genomes Using Extremely Long Single-Molecule Imaging

lrys:De Novo Assembly and Structural Variation Detection in ...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者： H VanSteenhouse A Hastie M Requa M Austin F Trintchouk M Saghbini X Yang H Cao BioNano Genomics Inc.

De novo genome assemblies using only short read data are generally incomplete and highly fragmented due to the intractable complexity found in most *** complexity, consisting mainly of large duplications and repetitive regions,hinders sequence assembly and subsequent comparative analyses. The lrys platform from BioNano Genomics overcomes the limitations of short fragment technologies to provide unprecedented insights into whole-genome biology,lrys is a single-molecule genome analysis system based on NanoChannel Array technology that linearizes extremely long DNA molecules for *** high-throughput platform automates massively parallel imaging of individual molecules of genomic DNA hundreds of kilobases in size to measure sufficient sequence uniqueness and long-range contiguity critical for unambiguous de novo assembly of complex ***-resolution genome maps assembled de novo retain the original context and architecture of the genome,making them extremely useful for sequence assembly scaffolding and structural variation detection applications. Specifically,these genome maps provide dense genome-wide anchor points for ordering and orienting sequencing contigs or scaffolds to greatly increase completion and accuracy of de novo *** variants and repeats are measured directly within long "reads" for comprehensive analysis of what has been dubbed "the inaccessible genome".Following an introduction to the platform and underlying single-molecule technology,several examples of real-world application will demonstrate its use in large complex genomes.

关键词： Irys de novo assemblies structural variants

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A circadian model for attention deficit and hyperactivity disorder(ADHD)

A circadian model for attention deficit and hyperactivity di...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者：王晗 Center for Circadian Clocks Soochow University

Attention Deficit/Hyperactivity Disorder(ADHD) is one of the most prevalent psychiatric disorders in children and adults,affecting approximately 3-5%of the population ADHD is characterized clinically by hyperactivity,impulsivity and *** we report an insertional mutant wherein the retroviral insertion abolishes the transcription of zebrafish periodlb (perlb).PER1B inhibits zebrafish perla,per2,and per3 but upregulates ADHD-susceptibility gene lphn3.1.A group of behavioral assays demonstrated that homozygous perlb(-/-) larvae and adult fish are hyperactive,impulsive and inattentive,reminiscent of human ADHD *** of perlb function results in upregulation of the two genes(dbh,and mao) involved in dopamine degradation but downregulation of transcription factors(otpa and otpb) and signaling proteins (wntl and wnt5al) involved in differentiation and development of the dopaminergic(DA) neurons in homozygous perlb(-/-).The latter could be responsible for partial loss of dopaminergic neurons in the posterior tuberculum(PT) of the ventral diencephalon in homozygous perlb(-/-).Therefore, the homozygous perlb(-/-) larvae and adult fish produce significantly reduced amount of endogenous ***,the mutant behavioral abnormality can be rescued by wild type perlb and the ADHD treatment drug *** studies for the first time demonstrated that disruption of a circadian clock gene elicits ADHD-like syndromes,and these unique ADHD animal models should open avenues for exploring novel targets for ADHD diagnosis and treatment.

关键词： ADHD Dopaminergic neuron Circadian clocks Zebrafish

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Irys:De Novo Assembly and Structural Variation Detection in Complex Genomes Using Extremely Long Single-Molecule Imaging

Irys:De Novo Assembly and Structural Variation Detection in ...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者： H VanSteenhouse A Hastie M Requa M Austin F Trintchouk M Saghbini X Yang H Cao BioNano Genomics Inc.

De novo genome assemblies using only short read data are generally incomplete and highly fragmented due to the intractable complexity found in most *** complexity, consisting mainly of large duplications and repetitive regions,hinders sequence assembly and subsequent comparative analyses. The lrys platform from BioNano Genomics overcomes the limitations of short fragment technologies to provide unprecedented insights into whole-genome *** is a single-molecule genome analysis system based on NanoChannel Array technology that linearizes extremely long DNA molecules for *** high-throughput platform automates massively parallel imaging of individual molecules of genomic DNA hundreds of kiiobases in size to measure sufficient sequence uniqueness and long-range contiguity critical for unambiguous de novo assembly of complex ***-resolution genome maps assembled de novo retain the original context and architecture of the genome,making them extremely useful for sequence assembly scaffolding and structural variation detection applications. Specifically,these genome maps provide dense genome-wide anchor points for ordering and orienting sequencing contigs or scaffolds to greatly increase completion and accuracy of de novo *** variants and repeats are measured directly within long "reads" for comprehensive analysis of what has been dubbed "the inaccessible genome".Following an introduction to the platform and underlying single-molecule technology,several examples of real-world application will demonstrate its use in large complex genomes.

关键词： Irys de novo assemblies structural variants

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Arabidopsis PROTEIN S-ACYL TRANSFERASE 10 is Critical for Development and Salt Tolerance

Arabidopsis PROTEIN S-ACYL TRANSFERASE 10 is Critical for De...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者： Liang-Zi Zhou Sha Li Qiang-Nan Feng Yu-Ling Zhang Xinying Zhao Yonglun Zeng Hao Wang Liwen Jiang Yan Zhang State Key Laboratory of Crop Biology Shandong Agricultural University School of Life Sciences Centre for Cell and Developmental Biologythe Chinese University of Hong Kong

Protein S-acylation,commonly known as palmitoylation,is a reversible post-translational modification that catalyzes the addition of saturated lipid group,often palmitate, to the sulfhydryl group of a *** regulates enzyme activity,proteins stability and subcellular localization,and intracellular *** plant proteins are palmitoylated, however,little is known about S-acyl transferases(PATs) that catalyze *** we report that the tonoplast-localized Arabidopsis PAT10 is critical for development and salt tolerance PAT10 loss-of-function resulted in pleiotropic growth defects including smaller leaves,dwarfism and *** addition,pat1O mutants are hypersensitive to salt *** further show that PAT10 regulates the tonoplast localization of several calcineurin B-like proteins including CBL2, CBL3 and CBL6 whose membrane association also depends on *** a C192S mutation within the highly conserved DHHC motif of PAT10 failed to complement pat10 mutants,indicating that PAT10 functions through protein *** propose that PAT10-mediated palmitoylation is critical for vacuolar function by regulating membrane association or activities of tonoplast proteins.

关键词： Arabidopsis PROTEIN S-ACYL TRANSFERASE 10 is Critical for Development and Salt Tolerance

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TaTOC1 genes involved in circadian clock controls several agronomic traits in wheat

TaTOC1 genes involved in circadian clock controls several ag...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者： Xiang Bin Chen Po Hong Ji Yun Wu Xing Xing Shao Xiao Min Bie Xiang Yu Zhao Xing Guo Ye Xian Sheng Zhang State Key Laboratory of Crop Biology Shandong Key Laboratory of Crop BiologyCollege of Life SciencesShandong Agricultural University National Key Facility of Crop Gene Resources and Genetic Improvement/Institute of Crop Sciences Chinese Academy of Agricultural Sciences

Circadian clock has been found to play important roles in plant growth and development Wheat(Triticum astivum L.) circadian clock genes,TaTOC1-A,TaTOCI-B,TaTOCI-D,were cloned and mapped in wheat chromosome 6A,6B and 6D,*** transcripts of TaTOC1-A,TaTOC1-B and TaTOC1-D could be detected in all organs of wheat,and the expression level of each gene differed depending on the organ types and development *** further determine their functions in wheat,an RNAi vector was constructed to knock down three genes including TaTOC1-A,TaTOC1-B and *** results showed that the expression of TaTOC1-A,TaTOC1-B and TaTOC1-D were significantly reduced in transgenic ***, the transgenic plants showed early heading time in both long-day and short-day ***, other agronomic traits including early heading time,reduced plant height,increased leaf size,and enhanced photosynthetic rate were identified in the transgenic *** results provide important information for understanding mechanisms of the agronomic traits determination in wheat.

关键词： Wheat Circadian Clock TaTOC1 Transgenic plant

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GMATA:a comprehensive software for exploring microsatellites toward molecular breeding in whole genome sequences

GMATA:a comprehensive software for exploring microsatellites...

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中国遗传学会第九次全国会员代表大会暨学术研讨会

作者：王学文 Jeffrey Bennetzen Plant Germplasm and Genomics Center Germplasm Bank of Wild Species in Southwest ChinaKunming Institute of BotanyChinese Academy of Sciences Department of genetics University of Georgia

Simple Sequence Repeats(SSR),also called microsatellite,is important genome feature and very useful for genetic marker based genome *** increasing whole sequences of large genomes provide informative resources for SSR marker developing and applied genetic *** currently it lacks of efficient software for the above purpose at whole large genome ***-wide Microsatellite Analyzing Tool Package(GMATA) is a novel software for SSR mining,statistical analysis and plotting,SSR loci viewing,marker designing,electronic mapping,and marker transferability investigation at whole genome *** from any other software,GMATA provides multiple and comprehensive statistical data for SSRs,markers, e-mapping,statistical figure plotting and graphically browsing SSR loci with other genome sequence features in Gbrowse for any large *** one input file is required which contains genome sequences in fasta *** software runs super-faster and more accurate than existed tools SSR Locator and *** was programmed in Java,R and Perl languages with both graphic and command line interface,either executable alone in platform independent manner with full parameters *** GMATA is a powerful tool package for complete SSR characterization,marker development and transferability analyzing in any genome at any size, which speeds up the applied genomic research.

关键词： genome microsatellite SSR marker development e-mapping statistics plotting Gbrowse

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