Articles

Comparative transcriptome analysis reveals gene expression differences between two peach cultivars under saline-alkaline stress

Saline-alkaline stress is a major abiotic stress that is harmful to plant growth worldwide. Two peach cultivars (GF677 and Maotao) display distinct phenotypes under saline-alkaline stress. The molecular mechan...

Authors: Shuxia Sun, Haiyan Song, Jing Li, Dong Chen, Meiyan Tu, Guoliang Jiang, Guoqing Yu and Zhiqin Zhou

STRsearch: a new pipeline for targeted profiling of short tandem repeats in massively parallel sequencing data

Short tandem repeats (STRs) are important polymorphism makers for human identification and kinship analyses in forensic science. With the continuous development of massively parallel sequencing (MPS), more lab...

Authors: Dong Wang, Ruiyang Tao, Zhiqiang Li, Dun Pan, Zhuo Wang, Chengtao Li and Yongyong Shi

Evaluation of heritability of β-eudesmol/hinesol content ratio in Atractylodes lancea De Candolle

Atractylodes lancea De Candolle is a medicinal plant distributed in East Asia. Its rhizome has been used as an important crude drug in traditional Chinese and Japanese medicines for the treatment of numerous dise...

Authors: Takahiro Tsusaka, Bunsho Makino, Ryo Ohsawa and Hiroshi Ezura

Identification of differentially expressed miRNAs in differentiating benign from malignant pleural effusion

Tuberculosis pleural effusion (TPE) and malignant pleural effusion (MPE) are very common clinical complications. Considering the totally different prognosis and clinical treatment of TPE and MPE, the accurate ...

Authors: Quanlei Bao, Yaping Xu, Ming Ding and Ping Chen

Advances in salt tolerance molecular mechanism in tobacco plants

Tobacco, an economic crop and important model plant, has received more progress in salt tolerance with the aid of transgenic technique. Salt stress has become a key research field in abiotic stress. The study ...

Authors: Haiji Sun, Xiaowen Sun, Hui Wang and Xiaoli Ma

Morphological variation in Cynodon dactylon (L.) Pers., and its relationship with the environment along a longitudinal gradient

Geographical variation in morphological traits may reflect evolutionary patterns of morphological adaptability along environmental gradients. Comprehensive information on longitudinal patterns of morphological...

Authors: Miaoli Wang, Jingxue Zhang, Zhipeng Guo, Yongzhuo Guan, Gen Qu, Jianyu Liu, Yuxia Guo and Xuebing Yan

Epistatic interaction between PKD2 and ABCG2 influences the pathogenesis of hyperuricemia and gout

Genetic background affects serum urate concentration and gout risk, especially regarding these variants in the urate-transporter gene ABCG2. However, the role of epistasis between PKD2 and ABCG2 on the pathogenes...

Authors: Zheng Dong, Jingru Zhou, Shuai Jiang, Yuan Li, Dongbao Zhao, Chengde Yang, Yanyun Ma, Hongjun He, Hengdong Ji, Li Jin, Hejian Zou and Jiucun Wang

Profiling of the germline mutation BRCA1: p.Ile1845fs in a large cohort of Han Chinese breast cancer

Breast cancer is a one of the malignant carcinomas partially caused by genetic risk factors. Germline BRCA1 gene mutations are reportedly associated with breast cancers. Identification of BRCA1 mutations greatly ...

Authors: Yu Wu, Huanhuan Zhang, Xiaoling Weng, Honglian Wang, Qinghua Zhou, Ying Wu, Yi Shen and Zhen Hu

Neonatal Crohn’s disease with Oral ulcer as the first symptom caused by a compound heterozygote mutation in IL-10RA: a case report

To investigate the clinical and genetic characteristics of neonatal Crohn’s disease (CD), improve recognition of neonatal CD, and reduce the number of patients that are missed or misdiagnosed.

Authors: Hongyan Lv, Baojun Qiao, Liyuan Fang, Lihong Yang, Qiuli Wang, Sujing Wu, Pengshun Ren and Lianxiang Li

Genetic interactions between Protein Kinase D and Lobe mutants during eye development of Drosophila melanogaster

In Drosophila, the development of the fly eye involves the activity of several, interconnected pathways that first define the presumptive eye field within the eye anlagen, followed by establishment of the dorso-v...

Authors: Dieter Maier, Anja C. Nagel and Anette Preiss

Responses of earliness and lateness genes for heading to different photoperiods, and specific response of a gene or a pair of genes to short day length in rice

Heading time is an important trait for regional and seasonal adaptabilities in rice, and is controlled by genetic factors in relation with environmental factors, mainly day length and temperature. The followin...

Authors: Birendra Bahadur Rana, Misa Kamimukai, Mukunda Bhattarai, Yohei Koide and Masayuki Murai

Identification of key microRNAs in the carotid arteries of ApoE^−/− mice exposed to disturbed flow

Atherosclerosis (AS) is one of the main causes of cardiovascular disease. AS plaques often occur in blood vessels with oscillatory blood flow and their formation can be regulated by microRNAs (miRNAs). The aim...

Authors: Xinzhou Wang, Shuibo Gao, Liping Dai, Zhentao Wang and Hong Wu

Identification and profiling of microRNAs responsive to cadmium toxicity in hepatopancreas of the freshwater crab Sinopotamon henanense

Cadmium (Cd) is a ubiquitous environmental toxicant for aquatic animals. The freshwater crab, Sinopotamon henanense (S. henanense), is a useful model for monitoring Cd exposure since it is widely distributed in s...

Authors: Peng Xu, Huiqin Guo, Huihui Wang, Yuxin Xie, Shao Chin Lee, Ming Liu, Jian Zheng, Xiuli Mao, Huan Wang, Fatao Liu, Chunling Wan, Shengying Qin, Yun Liu, Meirong Zhao and Lan Wang

Mendel’s pea crosses: varieties, traits and statistics

A controversy arose over Mendel’s pea crossing experiments after the statistician R.A. Fisher proposed how these may have been performed and criticised Mendel’s interpretation of his data. Here we re-examine M...

Authors: T. H. Noel Ellis, Julie M. I. Hofer, Martin T. Swain and Peter J. van Dijk

Genetic diversity and structure of Capsicum annuum as revealed by start codon targeted and directed amplified minisatellite DNA markers

Identification of high resolving DNA-based markers is of paramount importance to unlock the potential of genetic diversity and selection of unique accessions of Capsicum annuum L., within Cross River and Ebonyi S...

Authors: David O. Igwe, Celestine A. Afiukwa, George Acquaah and George N. Ude

Identification of RUNX2 variants associated with cleidocranial dysplasia

Cleidocranial dysplasia (CCD) is a rare autosomal dominant disorder mainly characterized by hypoplastic or absent clavicles, delayed closure of the fontanelles, multiple dental abnormalities, and short stature...

Authors: Xueren Gao, Kunxia Li, Yanjie Fan, Yu Sun, Xiaomei Luo, Lili Wang, Huili Liu, Zhuwen Gong, Jianguo Wang, Yu Wang, Xuefan Gu and Yongguo Yu

bicoid RNA localization requires the trans-Golgi network

The formation of the bicoid (bcd) mRNA gradient is a crucial step for Bcd protein gradient formation in Drosophila. In the past, a microtubule (MT)-based cortical network had been shown to be indispensable for bc...

Authors: Xiaoli Cai, Khalid Fahmy and Stefan Baumgartner

Detect accessible chromatin using ATAC-sequencing, from principle to applications

Chromatin accessibility is crucial for gene expression regulation in specific cells and in multiple biological processes. Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-seq) i...

Authors: Yuanyuan Sun, Nan Miao and Tao Sun

Hereditary spastic paraplegia associated with a rare IFIH1 mutation: a case report and literature review

Here, the pathogenesis of an IFIH1 gene mutation is discussed through the analysis of a sporadic case of hereditary spastic paraplegia. Next-generation sequencing was performed for the patient and his family memb...

Authors: Nan Liu, Jiajun Chen, Chuan Xu, Tianji Shi and Jia Li

Expression analysis of Argonaute genes in maize (Zea mays L.) in response to abiotic stress

Argonaute (AGO) protein is a kind of RNA binding protein that plays an integral role in the gene-silencing pathways guided by small RNAs. But there are few studies about the regulation of AGO genes responded t...

Authors: Lihong Zhai, Feng Teng, Kangpeng Zheng, Juan Xiao, Wenbin Deng and Wei Sun

ABCG2 gene polymorphism rs2231142 is associated with gout comorbidities but not allopurinol response in primary gout patients of a Chinese Han male population

One common ATP-binding cassette subfamily G member 2 (ABCG2) gene variant, which is encoded by the single nucleotide polymorphism (SNP) rs2231142, was identified to take an essential part in gouty arthritis. H...

Authors: Keke Zhang and Changgui Li

Integrated identification of key genes and pathways in Alzheimer’s disease via comprehensive bioinformatical analyses

Alzheimer’s disease (AD) is known to be caused by multiple factors, meanwhile the pathogenic mechanism and development of AD associate closely with genetic factors. Existing understanding of the molecular mech...

Authors: Tingting Yan, Feng Ding and Yan Zhao

A co-expression network for differentially expressed genes in bladder cancer and a risk score model for predicting survival

Urothelial bladder cancer (BLCA) is one of the most common internal malignancies worldwide with poor prognosis. This study aims to explore effective prognostic biomarkers and construct a prognostic risk score ...

Authors: Zihao Chen, Guojun Liu, Aslam Hossain, Irina G. Danilova, Mikhail A. Bolkov, Guoqing Liu, Irina A. Tuzankina and Wanlong Tan

Identification of serum microRNAs as diagnostic biomarkers for schizophrenia

At present, the schizophrenia diagnoses are based on the clinical symptoms and behaviors neglecting the laboratory test indicators.

Authors: Kuanjun He, Chuang Guo, Meng Guo, Shuping Tong, Qiuli Zhang, Hongjun Sun, Lin He and Yongyong Shi

Mapping and characterization of a quantitative trait locus resistance to the brown planthopper in the rice variety IR64

Rice planthoppers (main brown planthopper, Nilaparvata lugens Stål; BPH) was one of substantial threats to Asia rice production as its serious destruction and difficulties in control under field conditions. Notab...

Authors: Meng Yang, Ling Cheng, Liuhui Yan, Wan Shu, Xinyi Wang and Yongfu Qiu

Proteomic characterization of bovine granulosa cells in dominant and subordinate follicles

Characterization of molecular factors regulating ovarian follicular development is critical to understanding its functional mechanism of controlling the estrous cycle, determining oocyte competency, and regula...

Authors: Qingling Hao, Zhiwei Zhu, Dongmei Xu, Wenzhong Liu, Lihua Lyu and Pengfei Li

Identification of five hub genes as monitoring biomarkers for breast cancer metastasis in silico

Breast cancer is one of the most common endocrine cancers among females worldwide. Distant metastasis of breast cancer is causing an increasing number of breast cancer-related deaths. However, the potential me...

Authors: Yun Cai, Jie Mei, Zhuang Xiao, Bujie Xu, Xiaozheng Jiang, Yongjie Zhang and Yichao Zhu

Association of SYNE1 locus with bipolar disorder in Chinese population

Genome-wide association studies (GWAS) suggest that rs9371601 in the SYNE1 gene is a risk SNP for bipolar disorder (BPD) in populations of European ancestry, but further replication analyses across distinct popul...

Authors: Wenqiang Li, Yongfeng Yang, Binbin Luo, Yan Zhang, Xueqin Song, Ming Li and Luxian Lv

Jérôme Lejeune passed away 25 years ago

Authors: Vicente Soriano

Differentially expressed genes between systemic sclerosis and rheumatoid arthritis

Evidence is accumulating to characterise the key differences between systemic sclerosis (SSc) and rheumatoid arthritis (RA), which are similar but distinct systemic autoimmune diseases. However, the difference...

Authors: Zhenyu Sun, Wenjuan Wang, Degang Yu and Yuanqing Mao

Bread wheat: a role model for plant domestication and breeding

Bread wheat is one of the most important crops in the world. Its domestication coincides with the beginning of agriculture and since then, it has been constantly under selection by humans. Its breeding has fol...

Authors: Eduardo Venske, Railson Schreinert dos Santos, Carlos Busanello, Perry Gustafson and Antonio Costa de Oliveira

Polymorphism of the PPARD Gene and Dynamic Balance Performance in Han Chinese Children

Athletic performances are complex traits with heritability of ~66%. Dynamic balance is one of the most important athletic performances, and there has been little studies for it in sports genomics. The candidate P...

Authors: Yixuan Cao, Qiyue Zhang, Jianhua Chen, Zhiqiang Li, Zhaowei Zhou, Jiawei Shen, Dong Wang, Dun Pan, Zhuo Wang, Dandan Ke, Xiaofei Wang, Dajiang Lu, Ying Zhao, Shulin Cheng and Yongyong Shi

Identification of the defense-related gene VdWRKY53 from the wild grapevine Vitis davidii using RNA sequencing and ectopic expression analysis in Arabidopsis

Grapevine is an important fruit crop grown worldwide, and its cultivars are mostly derived from the European species Vitis vinifera, which has genes for high fruit quality and adaptation to a wide variety of clim...

Authors: Ying Zhang, Jia-Long Yao, Hu Feng, Jianfu Jiang, Xiucai Fan, Yun-Fei Jia, Ran Wang and Chonghuai Liu

First report of bicolour FISH of Berberis diaphana and B. soulieana reveals interspecific differences and co-localization of (AGGGTTT)₃ and rDNA 5S in B. diaphana

Berberis consists of approximately 500 species and is the largest genus in Berberidaceae. Most Berberis species lack cytological data, and bicolour fluorescence in situ hybridization (FISH) has never been perform...

Authors: Juncheng Liu and Xiaomei Luo

Transcriptome profiling of the fertile parent and sterile hybrid in tea plant flower buds

The tea plant is a crucial economic crop. The floral organ development consumes a large amount of nutrients, which affects the leaf yield. To understand the mechanism by which the tea plant produces sterile fl...

Authors: Linbo Chen, Hao Qu, Lifei Xia, Yue Liu, Huibing Jiang, Yunnan Sun, Mingzhi Liang and Changjun Jiang

The inhibition of miR-126 in cell migration and invasion of cervical cancer through regulating ZEB1

Cervical cancer is a malignancy that’s common in female with high incidence and mortality worldwide. MicroRNAs (miRNAs) act a pivotal part in human cancer development. Our aim was to investigate the effect of ...

Authors: Jiqin Xu, Hongyun Wang, Huiyan Wang, Qing Chen, Li Zhang, Chao Song, Qianqian Zhou and Ying Hong

Global transcriptome analysis of H5N1 influenza virus-infected human cells

Influenza A virus (IAV) belongs to the Orthomyxoviridae family. IAV causes a highly contagious respiratory disease in humans that exacts severe economic losses globally. The virus uses strategies developed to exp...

Authors: Ying Cao, Kun Zhang, Lirong Liu, Wei Li, Bin Zhu, Shuang Zhang, Ping Xu, Wenjun Liu and Jing Li

Characterization of the Tibet plateau Jerusalem artichoke (Helianthus tuberosus L.) transcriptome by de novo assembly to discover genes associated with fructan synthesis and SSR analysis

Jerusalem artichoke (Helianthus tuberosus L.) is a characteristic crop in the Qinghai-Tibet Plateau which has rapidly developed and gained socioeconomic importance in recent years. Fructans are abundant in tubers...

Authors: Shipeng Yang, Xuemei Sun, Xiaoting Jiang, Lihui Wang, Jie Tian, Li Li, Mengliang Zhao and Qiwen Zhong

Genetic diversity and structure of Elymus tangutorum accessions from western China as unraveled by AFLP markers

Understanding genetic diversity of wild plant germplasm and the relationships between ecogeographic and genetic characteristics may provide insights for better utilizing and conserving genetic resources. Elymus t...

Authors: Wen-Dan Wu, Wen-Hui Liu, Ming Sun, Ji-Qiong Zhou, Wei Liu, Cheng-Lin Zhang, Xing-Quan Zhang, Yan Peng, Lin-Kai Huang and Xiao Ma

Bladder cancer stage-associated hub genes revealed by WGCNA co-expression network analysis

Bladder cancer was a malignant disease in patients, our research aimed at discovering the possible biomarkers for the diseases.

Authors: Yu Di, Dongshan Chen, Wei Yu and Lei Yan

A new model of the mechanism underlying lead poisoning: SNP in miRNA target region influence the AGT expression level

To determine if the rs7079 polymorphism located in the 3′ UTR of the angiotensinogen gene (AGT) altered AGT gene expression and the risk of lead poisoning. A case-control study and luciferase reporter gene assay ...

Authors: Yu Wu, Miaomiao Wang, Jinlong Zhang, Na Sun and Chunping Li

The evolution of transcriptional repressors in the Notch signaling pathway: a computational analysis

The Notch signaling pathway governs the specification of different cell types in flies, nematodes and vertebrates alike. Principal components of the pathway that activate Notch target genes are highly conserve...

Authors: Dieter Maier

Common variants in the SLC28A2 gene are associated with serum uric acid level and hyperuricemia and gout in Han Chinese

Serum uric acid (SUA), hyperuricemia (HUA) and gout are complex traits with relatively high heritability. This study aims to identify whether a candidate gene, SLC28A2, exerts susceptibility for SUA fluctuation a...

Authors: Zhaowei Zhou, Zhiqiang Li, Can Wang, Xinde Li, Xiaoyu Cheng, Changgui Li and Yongyong Shi

Global mapping of binding sites for phic31 integrase in transgenic maden-darby bovine kidney cells using ChIP-seq

ΦC31 integrase, a site-specific recombinase, can efficiently target attB-bearing transgenes to endogenous pseudo attP sites within mammalian genomes. The sequence features of endogenous binding sites will help...

Authors: Lijuan Qu, Lei Wang, Xueyuan Zhu, Yan Zhang, Qiang Ou, Aying Ma, Fengying Sheng, Xiaoqing Wei, Yue Dai, Guoting Li and Shuwu Xie

Genetic characterization of maize germplasm derived from Suwan population and temperate resources

The Suwan population is a well-known maize germplasm that has greatly contributed to the development of maize breeding in tropical and subtropical regions, especially in southern China. Inbred lines derived fr...

Authors: Xun Wu, Angui Wang, Xiangyang Guo, Pengfei Liu, Yunfang Zhu, Xiushi Li and Zehui Chen

Natural selection and local adaptation of blood pressure regulation and their perspectives on precision medicine in hypertension

Prevalence of hypertension (HTN) varies substantially across different populations. HTN is not only common – affecting at least one third of the world’s adult population – but is also the most important driver...

Authors: Boon-Peng Hoh, Thuhairah Abdul Rahman and Khalid Yusoff

Differences in the Neanderthal BRCA2 gene might be related to their distinctive cognitive profile

The unique divergence of the BRCA2 gene in Neanderthals compared to modern humans has been hypothesized to account for a differential susceptibility to cancer. However, the role of the gene in brain development a...

Authors: Antonio Benítez-Burraco

Construction of a high-density genetic map: genotyping by sequencing (GBS) to map purple seed coat color (Psc) in hulless barley

Colored hulless barley are more suitable in food processing compared to normal (yellow) varieties because it is rich in bioactive compounds and produces higher extraction pearling fractions. Therefore, seed co...

Authors: Xiaohua Yao, Kunlun Wu, Youhua Yao, Yixiong Bai, Jingxiu Ye and Dezhao Chi

De novo transcriptome assembly of brackish water flea Diaphanosoma celebensis based on short-term cadmium and benzo[a]pyrene exposure experiments

To develop a brackish water flea as a promising model for marine monitoring, Diaphanosoma celebensis were exposed to two pollutants, cadmium (Cd) and benzo[a]pyrene (BaP), which have different chemical characteri...

Authors: Bo-Mi Kim, Seunghyun Kang, Ryeo-Ok Kim, Jee-Hyun Jung, Kyun-Woo Lee, Jae-Sung Rhee and Young-Mi Lee

Genetic diversity of Bletilla striata assessed by SCoT and IRAP markers

Bletilla striata is a well-known traditional Chinese herb with varieties of functions. In China, the natural resources of Bletilla striata have been severely damaged because of the excessive exploitation and dest...

Authors: Yan Guo, Lina Zhai, Hao Long, Nipi Chen, Chengxian Gao, Zhishan Ding and Bo Jin