Hereditas最新文献

{"title":"Detect accessible chromatin using ATAC-sequencing, from principle to applications","authors":"Yuanyuan Sun, Nan Miao, Tao Sun","doi":"10.1186/s41065-019-0105-9","DOIUrl":"https://doi.org/10.1186/s41065-019-0105-9","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2019-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0105-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"48358122","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Hereditary spastic paraplegia associated with a rare IFIH1 mutation: a case report and literature review","authors":"Nan Liu, Jiajun Chen, Chuan Xu, Tianji Shi, Jia Li","doi":"10.1186/s41065-019-0104-x","DOIUrl":"https://doi.org/10.1186/s41065-019-0104-x","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2019-08-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0104-x","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46711856","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"ABCG2 gene polymorphism rs2231142 is associated with gout comorbidities but not allopurinol response in primary gout patients of a Chinese Han male population","authors":"Keke Zhang, Changgui Li","doi":"10.1186/s41065-019-0103-y","DOIUrl":"https://doi.org/10.1186/s41065-019-0103-y","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2019-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0103-y","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49559888","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Expression analysis of Argonaute genes in maize (Zea mays L.) in response to abiotic stress","authors":"Lihong Zhai, F. Teng, Kangpeng Zheng, Juan Xiao, W. Deng, Wei Sun","doi":"10.1186/s41065-019-0102-z","DOIUrl":"https://doi.org/10.1186/s41065-019-0102-z","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2019-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0102-z","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49233086","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Integrated identification of key genes and pathways in Alzheimer’s disease via comprehensive bioinformatical analyses","authors":"Tingting Yan, F. Ding, Yan Zhao","doi":"10.1186/s41065-019-0101-0","DOIUrl":"https://doi.org/10.1186/s41065-019-0101-0","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2019-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0101-0","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46236670","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A co-expression network for differentially expressed genes in bladder cancer and a risk score model for predicting survival","authors":"Zihao Chen, Guojun Liu, A. Hossain, I. Danilova, M. Bolkov, Guoqing Liu, I. Tuzankina, W. Tan","doi":"10.1186/s41065-019-0100-1","DOIUrl":"https://doi.org/10.1186/s41065-019-0100-1","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2019-07-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0100-1","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42113314","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Regulation of DNA methylation on key parasitism genes of Cysticercus cellulosae revealed by integrative epigenomic-transcriptomic analyses","authors":"Xinrui Wang, Weiyi Song, G. Ji, Yining Song, Xiaolei Liu, Xue-nong Luo, Mingyuan Liu, Shumin Sun","doi":"10.1101/353417","DOIUrl":"https://doi.org/10.1101/353417","url":null,"abstract":"Background The life cycle of  Taenia solium  is characterized by different stages of development, requiring various kinds of hosts that can appropriately harbor the eggs (proglottids), the oncospheres, the larvae and the adults. Similar to other metazoan pathogens, T. solium undergoes transcriptional and developmental regulation via epigenetics during its complex lifecycle and host interactions. Result In the present study, we integrated whole-genome bisulfite sequencing and RNA-seq technologies to characterize the genome-wide DNA methylation and its effect on transcription of Cysticercus cellulosae of T. solium . We confirm that the T. solium genome in the cysticercus stage is epigenetically modified by DNA methylation in a pattern similar to that of other invertebrate genomes, i.e., sparsely or moderately methylated. We also observed an enrichment of non-CpG methylation in defined genetic elements of the T. solium genome. Furthermore, an integrative analysis of both the transcriptome and the DNA methylome indicated a strong correlation between these two datasets, suggesting that gene expression might be tightly regulated by DNA methylation. Importantly, our data suggested that DNA methylation might play an important role in repressing key parasitism-related genes, including genes encoding excretion-secretion proteins, thereby raising the possibility of targeting DNA methylation processes as a useful strategy in therapeutics of cysticercosis.","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2018-06-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46106937","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"SSR marker variations in Brassica species provide insight into the origin and evolution of <i>Brassica</i> amphidiploids.","authors":"Ajay Kumar Thakur,&nbsp;Kunwar Harendra Singh,&nbsp;Lal Singh,&nbsp;Joghee Nanjundan,&nbsp;Yasin Jeshima Khan,&nbsp;Dhiraj Singh","doi":"10.1186/s41065-017-0041-5","DOIUrl":"https://doi.org/10.1186/s41065-017-0041-5","url":null,"abstract":"<p><strong>Background: </strong>Oilseed Brassica represents an important group of oilseed crops with a long history of evolution and cultivation. To understand the origin and evolution of Brassica amphidiploids, simple sequence repeat (SSR) markers were used to unravel genetic variations in three diploids and three amphidiploid Brassica species of U's triangle along with <i>Eruca sativa</i> as an outlier.</p><p><strong>Results: </strong>Of 124 Brassica-derived SSR loci assayed, 100% cross-transferability was obtained for <i>B. juncea</i> and three subspecies of <i>B. rapa</i>, while lowest cross-transferability (91.93%) was obtained for <i>Eruca sativa</i>. The average % age of cross-transferability across all the seven species was 98.15%. The number of alleles detected at each locus ranged from one to six with an average of 3.41 alleles per primer pair. Neighbor-Joining-based dendrogram divided all the 40 accessions into two main groups composed of <i>B. juncea</i>/<i>B. nigra/B. rapa</i> and <i>B. carinata/B. napus/B. oleracea</i>. C-genome of oilseed <i>Brassica species</i> remained relatively more conserved than A- and B-genome. A- genome present in <i>B. juncea</i> and <i>B. napus</i> seems distinct from each other and hence provides great opportunity for generating diversity through synthesizing amphidiploids from different sources of A- genome. <i>B. juncea</i> had least intra-specific distance indicating narrow genetic base. <i>B. rapa</i> appears to be more primitive species from which other two diploid species might have evolved.</p><p><strong>Conclusion: </strong>The SSR marker set developed in this study will assist in DNA fingerprinting of various Brassica species cultivars, evaluating the genetic diversity in Brassica germplasm, genome mapping and construction of linkage maps, gene tagging and various other genomics-related studies in Brassica species. Further, the evolutionary relationship established among various Brassica species would assist in formulating suitable breeding strategies for widening the genetic base of Brassica amphidiploids by exploiting the genetic diversity present in diploid progenitor gene pools.</p>","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2017-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-017-0041-5","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35187604","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genetic risk between the <i>CACNA1I</i> gene and schizophrenia in Chinese Uygur population.","authors":"Wei Xu,&nbsp;Yahui Liu,&nbsp;Jianhua Chen,&nbsp;Qingli Guo,&nbsp;Ke Liu,&nbsp;Zujia Wen,&nbsp;Zhaowei Zhou,&nbsp;Zhijian Song,&nbsp;Juan Zhou,&nbsp;Lin He,&nbsp;Qizhong Yi,&nbsp;Yongyong Shi","doi":"10.1186/s41065-017-0037-1","DOIUrl":"https://doi.org/10.1186/s41065-017-0037-1","url":null,"abstract":"<p><strong>Background: </strong>Schizophrenia (SCZ) is a common mental disorder with high heritability, and genetic factors play a major role in the pathogenesis. Recent researches indicated that the <i>CACNA1I</i> involved in calcium channels probably affect the potential pathogenesis of SCZ.</p><p><strong>Results: </strong>In this study, we attempted to investigate whether the <i>CACNA1I</i> gene contributes the risk to SCZ in the Uighur Chinese population, and performed a case-control study involving 985 patient samples and 1218 normal controls to analyze nine SNPs within the <i>CACNA1I</i> gene. Among these sites, six SNPs were significantly associated with SCZ in the allele distribution: rs132575 (adjusted <i>P</i>_{<i>allele</i>}  = 0.039, OR = 1.159), rs713860 (adjusted <i>P</i>_{<i>allele</i>}  = 0.039, OR = 0.792), rs738168 (adjusted <i>P</i>_{<i>allele</i>}  = 0.039, OR = 0.785), rs136805 (adjusted <i>P</i>_{<i>allele</i>}  = 0.014, OR = 1.212), rs5757760 (adjusted <i>P</i>_{<i>allele</i>}  = 0.042, OR = 0.873) and rs5750871 (adjusted <i>P</i>_{<i>allele</i>}  = 0.039, OR = 0.859). In addition, two SNPs turned to be risk factors for SCZ not only in the allele distribution, but also in the genotype distribution: rs132575 (adjusted <i>P</i>_{<i>genotype</i>}  = 0.037) and rs136805 (adjusted <i>P</i>_{<i>genotype</i>}  = 0.037).</p><p><strong>Conclusions: </strong>Overall, the present study provided evidence that significant association exists between the <i>CACNA1I</i> gene and SCZ in the Uighur Chinese population, subsequent validation of functional analysis and genetic association studies are needed to further extend this study.</p>","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2017-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-017-0037-1","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35182167","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Microarray study of gene expression profile to identify new candidate genes involved in the molecular mechanism of leptin-induced knee joint osteoarthritis in rat.","authors":"Qing Fan,&nbsp;Zhu Liu,&nbsp;Chao Shen,&nbsp;Hai Li,&nbsp;Jing Ding,&nbsp;Fangchun Jin,&nbsp;Lin Sha,&nbsp;Ziming Zhang","doi":"10.1186/s41065-017-0039-z","DOIUrl":"https://doi.org/10.1186/s41065-017-0039-z","url":null,"abstract":"<p><strong>Background: </strong>Osteoarthritis (OA) is one of the most prevalent chronic joint diseases while the precise genetic mechanism remains elusive. In this study, we investigated the gene expression profile in OA by microarray analysis.</p><p><strong>Results: </strong>Histopathological characteristics of OA cartilage were examined using a rat model of leptin-induced OA. Gene expression profile of leptin-induced articular cartilage and healthy rat cartilage were compared using genome-wide microarray hybridization. A total of 1857 genes differentially expressed genes (1197 upregulated and 660 downregulated) were identified, some of which are known to be associated with leptin-induced OA phenotype. These included genes related to MMPs, inflammatory factors, growth factors, apoptotic genes and osteogenic genes. In addition, upregulated expressions of some new candidate genes, which have hitherto fore not been linked to OA (such as <i>BCL2L11</i>) were detected in leptin-induced OA cartilage, which suggests that these genes might be important for OA molecular mechanism.</p><p><strong>Conclusion: </strong>Our findings suggest that pathogenesis of leptin-induced OA involves modulation of expression of multiple genes, although the underlying molecular mechanisms need to be studied further. Further investigation of leptin-induced gene expression changes is needed to gain new insights into the molecular mechanism of OA pathogenesis.</p>","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":null,"pages":null},"PeriodicalIF":2.7,"publicationDate":"2017-07-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-017-0039-z","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35153802","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}