MethGET: web-based bioinformatics software for correlating genome-wide DNA methylation and gene expression
DNA methylation is a major epigenetic modification involved in regulating gene expression. The effects of DNA methylation on gene expression differ by genomic location and vary across kingdoms, species and env... (Source: BMC Genomics)
Source: BMC Genomics - May 29, 2020 Category: Genetics & Stem Cells Authors: Chin-Sheng Teng, Bing-Heng Wu, Ming-Ren Yen and Pao-Yang Chen Tags: Software Source Type: research

Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum
Parasitoid wasps have fascinating life cycles and play an important role in trophic networks, yet little is known about their genome content and function. Parasitoids that infect aphids are an important group ... (Source: BMC Genomics)
Source: BMC Genomics - May 29, 2020 Category: Genetics & Stem Cells Authors: Alice B. Dennis, Gabriel I. Ballesteros, St éphanie Robin, Lukas Schrader, Jens Bast, Jan Berghöfer, Leo W. Beukeboom, Maya Belghazi, Anthony Bretaudeau, Jan Buellesbach, Elizabeth Cash, Dominique Colinet, Zoé Dumas, Mohammed Errbii, Patrizia Falabella Tags: Research article Source Type: research

Similar yet different: phylogenomic analysis to delineate Salmonella and Citrobacter species boundaries
Salmonella enterica is a leading cause of foodborne illness worldwide resulting in considerable public health and economic costs. Testing for the presence of this pathogen in food is often hampered by the presenc... (Source: BMC Genomics)
Source: BMC Genomics - May 29, 2020 Category: Genetics & Stem Cells Authors: Ana Victoria C. Pilar, Nicholas Petronella, Forest M. Dussault, Adrian J. Verster, Sadjia Bekal, Roger C. Levesque, Lawrence Goodridge and Sandeep Tamber Tags: Research article Source Type: research

Comparative genomic analysis of 142 bacteriophages infecting Salmonella enterica subsp. enterica
Bacteriophages are bacterial parasites and are considered the most abundant and diverse biological entities on the planet. Previously we identified 154 prophages from 151 serovars of Salmonella enterica subsp. en... (Source: BMC Genomics)
Source: BMC Genomics - May 26, 2020 Category: Genetics & Stem Cells Authors: Ruimin Gao, Sohail Naushad, Sylvain Moineau, Roger Levesque, Lawrence Goodridge and Dele Ogunremi Tags: Research article Source Type: research

Correction to: Genome analysis of Salmonella enterica subsp. diarizonae isolates from invasive human infections reveals enrichment of virulence-related functions in lineage ST1256
An amendment to this paper has been published and can be accessed via the original article. (Source: BMC Genomics)
Source: BMC Genomics - May 26, 2020 Category: Genetics & Stem Cells Authors: Joaqu ín Giner-Lamia, Pablo Vinuesa, Laura Betancor, Claudia Silva, Julieta Bisio, Lorena Soleto, José A. Chabalgoity, José Luis Puente and Francisco García-del Portillo Tags: Correction Source Type: research

Multipathway synergy promotes testicular transition from growth to spermatogenesis in early-puberty goats
The microscopic process of postnatal testicular development in early-puberty animals is poorly understood. Therefore, in this study, 21 male Yiling goats with average ages of 0, 30, 60, 90, 120, 150 and 180  da... (Source: BMC Genomics)
Source: BMC Genomics - May 25, 2020 Category: Genetics & Stem Cells Authors: Dongdong Bo, Xunping Jiang, Guiqiong Liu, Feng Xu, Ruixue Hu, Teketay Wassie, Yuqing Chong, Sohail Ahmed, Chenhui Liu and Shishay Girmay Tags: Research article Source Type: research

Genome-wide characterization of the SPL gene family involved in the age development of Jatropha curcas
SPL (SQUAMOSA-promoter binding protein-like) proteins form a large family of plant-specific transcription factors that play essential roles in various aspects of plant growth and development. They are potentia... (Source: BMC Genomics)
Source: BMC Genomics - May 20, 2020 Category: Genetics & Stem Cells Authors: Niu Yu, Jin-Chang Yang, Guang-Tian Yin, Rong-Sheng Li and Wen-Tao Zou Tags: Research article Source Type: research

Impacts of local population history and ecology on the evolution of a globally dispersed pathogen
Pathogens with a global distribution face diverse biotic and abiotic conditions across populations. Moreover, the ecological and evolutionary history of each population is unique. Xylella fastidiosa is a xylem-dw... (Source: BMC Genomics)
Source: BMC Genomics - May 20, 2020 Category: Genetics & Stem Cells Authors: Andreina I. Castillo, Carlos Chac ón-Díaz, Neysa Rodríguez-Murillo, Helvecio D. Coletta-Filho and Rodrigo P. P. Almeida Tags: Research article Source Type: research

Gene expression of functionally-related genes coevolves across fungal species: detecting coevolution of gene expression using phylogenetic comparative methods
Researchers often measure changes in gene expression across conditions to better understand the shared functional roles and regulatory mechanisms of different genes. Analogous to this is comparing gene express... (Source: BMC Genomics)
Source: BMC Genomics - May 20, 2020 Category: Genetics & Stem Cells Authors: Alexander L. Cope, Brian C. O ’Meara and Michael A. Gilchrist Tags: Research Article Source Type: research

Correction to: Sex-specific changes in gene expression in response to estrogen pollution around the onset of sex differentiation in grayling (Salmonidae)
An amendment to this paper has been published and can be accessed via the original article. (Source: BMC Genomics)
Source: BMC Genomics - May 20, 2020 Category: Genetics & Stem Cells Authors: Oliver M. Selmoni, Diane Maitre, Julien Roux, Laetitia G. E. Wilkins, Lucas Marques da Cunha, Etienne L. M. Vermeirssen, Susanne Kn örr, Marc Robinson-Rechavi and Claus Wedekind Tags: Correction Source Type: research

Transposable element persistence via potential genome-level ecosystem engineering
The nuclear genomes of eukaryotes vary enormously in size, with much of this variability attributable to differential accumulation of transposable elements (TEs). To date, the precise evolutionary and ecologic... (Source: BMC Genomics)
Source: BMC Genomics - May 19, 2020 Category: Genetics & Stem Cells Authors: Stefan C. Kremer, Stefan Linquist, Brent Saylor, Tyler A. Elliott, T. Ryan Gregory and Karl Cottenie Tags: Research article Source Type: research

An integrated software for virus community sequencing data analysis
A virus community is the spectrum of viral strains populating an infected host, which plays a key role in pathogenesis and therapy response in viral infectious diseases. However automatic and dedicated pipelin... (Source: BMC Genomics)
Source: BMC Genomics - May 15, 2020 Category: Genetics & Stem Cells Authors: Mingjie Wang, Jianfeng Li, Xiaonan Zhang, Yue Han, Demin Yu, Donghua Zhang, Zhenghong Yuan, Zhitao Yang, Jinyan Huang and Xinxin Zhang Tags: Software Source Type: research

PretiMeth: precise prediction models for DNA methylation based on single methylation mark
The computational prediction of methylation levels at single CpG resolution is promising to explore the methylation levels of CpGs uncovered by existing array techniques, especially for the 450  K beadchip arra... (Source: BMC Genomics)
Source: BMC Genomics - May 15, 2020 Category: Genetics & Stem Cells Authors: Jianxiong Tang, Jianxiao Zou, Xiaoran Zhang, Mei Fan, Qi Tian, Shuyao Fu, Shihong Gao and Shicai Fan Tags: Methodology article Source Type: research

Metabolic and transcriptomic analysis of two Cucurbita moschata germplasms throughout fruit development
Pumpkins (Cucurbita moschata; Cucurbitaceae) are valued for their fruits and seeds and are rich in nutrients. Carotenoids and sugar contents, as main feature of pumpkin pulp, are used to determine the fruit quali... (Source: BMC Genomics)
Source: BMC Genomics - May 15, 2020 Category: Genetics & Stem Cells Authors: Hafiz Muhammad Khalid Abbas, He-Xun Huang, An-Jun Wang, Ting-Quan Wu, Shu-Dan Xue, Aqeel Ahmad, Da-Sen Xie, Jun-Xing Li and Yu-Juan Zhong Tags: Research article Source Type: research

Identification of QTL for resistance to root rot in sweetpotato (Ipomoea batatas (L.) Lam) with SSR linkage maps
Sweetpotato root rot is a devastating disease caused by Fusarium solani that seriously endangers the yield of sweetpotato in China. Although there is currently no effective method to control the disease, breeding... (Source: BMC Genomics)
Source: BMC Genomics - May 15, 2020 Category: Genetics & Stem Cells Authors: Zhimin Ma, Wenchuan Gao, Lanfu Liu, Minghui Liu, Ning Zhao, Meikun Han, Zhao Wang, Weijing Jiao, Zhiyuan Gao, Yaya Hu and Qingchang Liu Tags: Research article Source Type: research

Intron and gene size expansion during nervous system evolution
The evolutionary radiation of animals was accompanied by extensive expansion of gene and genome sizes, increased isoform diversity, and complexity of regulation. (Source: BMC Genomics)
Source: BMC Genomics - May 14, 2020 Category: Genetics & Stem Cells Authors: Matthew J. McCoy and Andrew Z. Fire Tags: Research article Source Type: research

Decoupling behavioral and transcriptional responses to color in an eyeless cnidarian
Animals have specific molecular, physiological, and behavioral responses to light that are influenced by wavelength and intensity. Predictable environmental changes – predominantly solar and lunar cycles – dri... (Source: BMC Genomics)
Source: BMC Genomics - May 14, 2020 Category: Genetics & Stem Cells Authors: Whitney B. Leach and Adam M. Reitzel Tags: Research article Source Type: research

Phylogenomic incongruence in Ceratocystis: a clue to speciation?
The taxonomic history of Ceratocystis, a genus in the Ceratocystidaceae, has been beset with questions and debate. This is due to many of the commonly used species recognition concepts (e.g., morphological and bi... (Source: BMC Genomics)
Source: BMC Genomics - May 14, 2020 Category: Genetics & Stem Cells Authors: Aquillah M. Kanzi, Conrad Trollip, Michael J. Wingfield, Irene Barnes, Magriet A. Van der Nest and Brenda D. Wingfield Tags: Research article Source Type: research

Identifying branch-specific positive selection throughout the regulatory genome using an appropriate proxy neutral
Adaptive changes in cis-regulatory elements are an essential component of evolution by natural selection. Identifying adaptive and functional noncoding DNA elements throughout the genome is therefore crucial for ... (Source: BMC Genomics)
Source: BMC Genomics - May 13, 2020 Category: Genetics & Stem Cells Authors: Alejandro Berrio, Ralph Haygood and Gregory A. Wray Tags: Methodology article Source Type: research

ICGEC: a comparative method for measuring epigenetic conservation of genes via the integrated signal from multiple histone modifications between cell types
Histone post-translational modifications play crucial roles in epigenetic regulation of gene expression and are known to be associated with the phenotypic differences of different cell types. Therefore, it is ... (Source: BMC Genomics)
Source: BMC Genomics - May 12, 2020 Category: Genetics & Stem Cells Authors: Jing Tang, Zefeng Wu, Yuhan Tian and Ruolin Yang Tags: Methodology article Source Type: research

Linkage mapping and genome-wide association study reveals conservative QTL and candidate genes for Fusarium rot resistance in maize
Fusarium ear rot (FER) caused by Fusarium verticillioides is a major disease of maize that reduces grain yield and quality globally. However, there have been few reports of major loci for FER were verified and cl... (Source: BMC Genomics)
Source: BMC Genomics - May 12, 2020 Category: Genetics & Stem Cells Authors: Yabin Wu, Zijian Zhou, Chaopei Dong, Jiafa Chen, Junqiang Ding, Xuecai Zhang, Cong Mu, Yuna Chen, Xiaopeng Li, Huimin Li, Yanan Han, Ruixia Wang, Xiaodong Sun, Jingjing Li, Xiaodong Dai, Weibin Song & hellip; Tags: Research article Source Type: research

Evolution of Fusarium tricinctum and Fusarium avenaceum mitochondrial genomes is driven by mobility of introns and of a new type of palindromic microsatellite repeats
Increased contamination of European and Asian wheat and barley crops with “emerging” mycotoxins such as enniatins or beauvericin, produced by Fusarium avenaceum and Fusarium tricinctum, suggest that these phyloge... (Source: BMC Genomics)
Source: BMC Genomics - May 12, 2020 Category: Genetics & Stem Cells Authors: Nadia Ponts, Charlotte Gautier, J érôme Gouzy, Laetitia Pinson-Gadais, Marie Foulongne-Oriol, Christine Ducos, Florence Richard-Forget, Jean-Michel Savoie, Chen Zhao and Gérard Barroso Tags: Research article Source Type: research

Host DNA contents in fecal metagenomics as a biomarker for intestinal diseases and effective treatment
Compromised intestinal barrier (CIB) has been associated with many enteropathies, including colorectal cancer (CRC) and inflammatory bowel disease (IBD). We hypothesized that CIB could lead to increased host-d... (Source: BMC Genomics)
Source: BMC Genomics - May 11, 2020 Category: Genetics & Stem Cells Authors: Puzi Jiang, Senying Lai, Sicheng Wu, Xing-Ming Zhao and Wei-Hua Chen Tags: Research article Source Type: research

Origin, clonal diversity, and evolution of the parthenogenetic lizard Darevskia unisexualis
The hybridization of female D. raddei and male D. valentini gave rise to the parthenogenetic Caucasian rock lizard Darevskia unisexualis. A previously identified genetic polymorphism in the species consisted of o... (Source: BMC Genomics)
Source: BMC Genomics - May 11, 2020 Category: Genetics & Stem Cells Authors: Andrey A. Vergun, Anastasiya E. Girnyk, Vitaly I. Korchagin, Seraphima K. Semyenova, Marine S. Arakelyan, Felix D. Danielyan, Robert W. Murphy and Alexey P. Ryskov Tags: Research article Source Type: research

Assessment of databases to determine the validity of β- and γ-carbonic anhydrase sequences from vertebrates
The inaccuracy of DNA sequence data is becoming a serious problem, as the amount of molecular data is multiplying rapidly and expectations are high for big data to revolutionize life sciences and health care. ... (Source: BMC Genomics)
Source: BMC Genomics - May 11, 2020 Category: Genetics & Stem Cells Authors: Reza Zolfaghari Emameh, Marianne Kuuslahti, Hassan Nosrati, Hannes Lohi and Seppo Parkkila Tags: Research article Source Type: research

High-resolution profile of transcriptomes reveals a role of alternative splicing for modulating response to nitrogen in maize
The fluctuation of nitrogen (N) contents profoundly affects the root growth and architecture in maize by altering the expression of thousands of genes. The differentially expressed genes (DEGs) in response to ... (Source: BMC Genomics)
Source: BMC Genomics - May 11, 2020 Category: Genetics & Stem Cells Authors: Yuancong Wang, Jinyan Xu, Min Ge, Lihua Ning, Mengmei Hu and Han Zhao Tags: Research article Source Type: research

Genomic variation among closely related Vibrio alginolyticus strains is located on mobile genetic elements
Species of the genus Vibrio, one of the most diverse bacteria genera, have undergone niche adaptation followed by clonal expansion. Niche adaptation and ultimately the formation of ecotypes and speciation in this... (Source: BMC Genomics)
Source: BMC Genomics - May 11, 2020 Category: Genetics & Stem Cells Authors: Cynthia Maria Chibani, Olivia Roth, Heiko Liesegang and Carolin Charlotte Wendling Tags: Research article Source Type: research

Differential expression pattern of the proteome in response to cadmium stress based on proteomics analysis of wheat roots
Heavy metal cadmium (Cd) is a common environmental pollutant in soils, which has an negative impacts on crop growth and development. At present, cadmium has become a major soil and water heavy metal pollutant,... (Source: BMC Genomics)
Source: BMC Genomics - May 7, 2020 Category: Genetics & Stem Cells Authors: Mingyang Jian, Dazhong Zhang, Xiaoying Wang, Shuwei Wei, Yue Zhao, Qin Ding, Yucui Han and Lingjian Ma Tags: Research article Source Type: research

Genome-wide association analyses identify known and novel loci for teat number in Duroc pigs using single-locus and multi-locus models
More teats are necessary for sows to nurse larger litters to provide immunity and nutrient for piglets prior to weaning. Previous studies have reported the strong effect of an insertion mutation in the Vertebr... (Source: BMC Genomics)
Source: BMC Genomics - May 7, 2020 Category: Genetics & Stem Cells Authors: Zhanwei Zhuang, Rongrong Ding, Longlong Peng, Jie Wu, Yong Ye, Shenping Zhou, Xingwang Wang, Jianping Quan, Enqin Zheng, Gengyuan Cai, Wen Huang, Jie Yang and Zhenfang Wu Tags: Research article Source Type: research

Comparative genomics of whole-cell pertussis vaccine strains from India
Despite high vaccination coverage using acellular (ACV) and whole-cell pertussis (WCV) vaccines, the resurgence of pertussis is observed globally. Genetic divergence in circulating strains of Bordetella pertussis (Source: BMC Genomics)
Source: BMC Genomics - May 7, 2020 Category: Genetics & Stem Cells Authors: Shweta Alai, Vikas C. Ghattargi, Manish Gautam, Krunal Patel, Shrikant P. Pawar, Dhiraj P. Dhotre, Umesh Shaligram and Sunil Gairola Tags: Research article Source Type: research

The tapeworm interactome: inferring confidence scored protein-protein interactions from the proteome of Hymenolepis microstoma
Reference genome and transcriptome assemblies of helminths have reached a level of completion whereby secondary analyses that rely on accurate gene estimation or syntenic relationships can be now conducted wit... (Source: BMC Genomics)
Source: BMC Genomics - May 7, 2020 Category: Genetics & Stem Cells Authors: Katherine James and Peter D. Olson Tags: Research Article Source Type: research

The whole-transcriptome landscape of muscle and adipose tissues reveals the ceRNA regulation network related to intramuscular fat deposition in yak
The Intramuscular fat (IMF) content in meat products, which is positively correlated with meat quality, is an important trait considered by consumers. The regulation of IMF deposition is species specific. Howe... (Source: BMC Genomics)
Source: BMC Genomics - May 7, 2020 Category: Genetics & Stem Cells Authors: Hui Wang, Jincheng Zhong, Chengfu Zhang, Zhixin Chai, Hanwen Cao, Jikun Wang, Jiangjiang Zhu, Jiabo Wang and Qiumei Ji Tags: Research article Source Type: research

Correction to: The International Conference on Intelligent Biology and Medicine 2019 (ICIBM 2019): conference summary and innovations in genomics
An amendment to this paper has been published and can be accessed via the original article. (Source: BMC Genomics)
Source: BMC Genomics - May 6, 2020 Category: Genetics & Stem Cells Authors: Ewy Math é, Chi Zhang, Kai Wang, Xia Ning, Yan Guo and Zhongming Zhao Tags: Correction Source Type: research

Whole-genome homozygosity mapping reveals candidate regions affecting bull fertility in US Holstein cattle
Achieving rapid genetic progress while maintaining adequate genetic diversity is one of the main challenges facing the dairy industry. The increase in inbreeding can be used to monitor the loss of genetic dive... (Source: BMC Genomics)
Source: BMC Genomics - May 4, 2020 Category: Genetics & Stem Cells Authors: Juan Pablo Nani and Francisco Pe ñagaricano Tags: Research article Source Type: research

Transcriptome analysis reveals rapid defence responses in wheat induced by phytotoxic aphid Schizaphis graminum feeding
Schizaphis graminum is one of the most important and devastating cereal aphids worldwide, and its feeding can cause chlorosis and necrosis in wheat. However, little information is available on the wheat defence r... (Source: BMC Genomics)
Source: BMC Genomics - May 4, 2020 Category: Genetics & Stem Cells Authors: Yong Zhang, Yu Fu, Qian Wang, Xiaobei Liu, Qian Li and Julian Chen Tags: Research article Source Type: research

Casparian strip membrane domain proteins in Gossypium arboreum: genome-wide identification and negative regulation of lateral root growth
Root systems are critical for plant growth and development. The Casparian strip in root systems is involved in stress resistance and maintaining homeostasis. Casparian strip membrane domain proteins (CASPs) ar... (Source: BMC Genomics)
Source: BMC Genomics - May 4, 2020 Category: Genetics & Stem Cells Authors: Xiaoyang Wang, Yuanming Zhang, Liyuan Wang, Zhaoe Pan, Shoupu He, Qiong Gao, Baojun Chen, Wenfang Gong and Xiongming Du Tags: Research article Source Type: research

The metabolome as a link in the genotype-phenotype map for peroxide resistance in the fruit fly, Drosophila melanogaster
Genetic association studies that seek to explain the inheritance of complex traits typically fail to explain a majority of the heritability of the trait under study. Thus, we are left with a gap in the map fro... (Source: BMC Genomics)
Source: BMC Genomics - May 4, 2020 Category: Genetics & Stem Cells Authors: Benjamin R. Harrison, Lu Wang, Erika Gajda, Elise V. Hoffman, Brian Y. Chung, Scott D. Pletcher, Daniel Raftery and Daniel E. L. Promislow Tags: Research article Source Type: research

RNA-Seq and secondary metabolite analyses reveal a putative defence-transcriptome in Norway spruce (Picea abies) against needle bladder rust (Chrysomyxa rhododendri) infection
Norway spruce trees in subalpine forests frequently face infections by the needle rust fungus Chrysomyxa rhododendri, which causes significant growth decline and increased mortality of young trees. Yet, it is unk... (Source: BMC Genomics)
Source: BMC Genomics - May 1, 2020 Category: Genetics & Stem Cells Authors: Carlos Trujillo-Moya, Andrea Ganthaler, Wolfgang St öggl, Ilse Kranner, Silvio Schüler, Reinhard Ertl, Sarah Schlosser, Jan-Peter George and Stefan Mayr Tags: Research article Source Type: research

Characterization of bacterial communities associated with the pinewood nematode insect vector Monochamus alternatus Hope and the host tree Pinus massoniana
Monochamus alternatus Hope is one of the insect vectors of pinewood nematode (Bursaphelenchus xylophilus), which causes the destructive pine wilt disease. The microorganisms within the ecosystem, comprising plant... (Source: BMC Genomics)
Source: BMC Genomics - May 1, 2020 Category: Genetics & Stem Cells Authors: Yajie Guo, Qiannan Lin, Lyuyi Chen, Rebeca Carballar-Lejaraz ú, Aishan Zhang, Ensi Shao, Guanghong Liang, Xia Hu, Rong Wang, Lei Xu, Feiping Zhang and Songqing Wu Tags: Research article Source Type: research

On neotypes and nomina nova: commentary on “Comparative analysis of Faecalibacterium prausnitzii genomes shows a high level of genome plasticity and warrants separation into new species-level taxa”, by C.B. Fitzgerald et al. (BMC Genomics (2018) 19:931)
In their paper entitled “Comparative analysis of Faecalibacterium prausnitzii genomes shows a high level of genome plasticity and warrants separation into new species-level taxa” (BMC Genomics (2018) 19:931), Fit... (Source: BMC Genomics)
Source: BMC Genomics - April 30, 2020 Category: Genetics & Stem Cells Authors: Aharon Oren and George M. Garrity Tags: Correspondence Source Type: research

The influence of balanced complex chromosomal rearrangements on preimplantation embryonic development potential and molecular karyotype
Balanced complex chromosome rearrangements (BCCR) are balanced chromosomal structural aberrations that involve two or more chromosomes and at least three breakpoints. It is very rare in the population. The obj... (Source: BMC Genomics)
Source: BMC Genomics - April 29, 2020 Category: Genetics & Stem Cells Authors: Gang Li, Weiyi Shi, Wenbin Niu, Jiawei Xu, Yihong Guo, Yingchun Su and Yingpu Sun Tags: Research article Source Type: research

Analysis of DNA methylation profiles during sheep skeletal muscle development using whole-genome bisulfite sequencing
DNA methylation is an epigenetic regulatory form that plays an important role in regulating the gene expression and the tissues development.. However, DNA methylation regulators involved in sheep muscle develo... (Source: BMC Genomics)
Source: BMC Genomics - April 29, 2020 Category: Genetics & Stem Cells Authors: Yixuan Fan, Yaxu Liang, Kaiping Deng, Zhen Zhang, Guomin Zhang, Yanli Zhang and Feng Wang Tags: Research article Source Type: research

Transcriptomic analysis of flower induction for long-day pitaya by supplementary lighting in short-day winter season
Pitayas are currently attracting considerable interest as a tropical fruit with numerous health benefits. However, as a long-day plant, pitaya plants cannot flower in the winter season from November to April i... (Source: BMC Genomics)
Source: BMC Genomics - April 29, 2020 Category: Genetics & Stem Cells Authors: Rui Xiong, Chengli Liu, Min Xu, Shuang-shuang Wei, Jia-quan Huang and Hua Tang Tags: Research article Source Type: research

Homoeolog expression bias and expression level dominance (ELD) in four tissues of natural allotetraploid Brassica napus
Allopolyploidy is widespread in angiosperms, and they can coordinate two or more different genomes through genetic and epigenetic modifications to exhibit stronger vigor and adaptability. To explore the change... (Source: BMC Genomics)
Source: BMC Genomics - April 29, 2020 Category: Genetics & Stem Cells Authors: Mengdi Li, Ruihua Wang, Xiaoming Wu and Jianbo Wang Tags: Research article Source Type: research

P finder: genomic and metagenomic annotation of RNase P RNA gene (rnpB)
The rnpB gene encodes for an essential catalytic RNA (RNase P). Like other essential RNAs, RNase P ’s sequence is highly variable. However, unlike other essential RNAs (i.e. tRNA, 16 S, 6 S,...) its structure is a... (Source: BMC Genomics)
Source: BMC Genomics - April 29, 2020 Category: Genetics & Stem Cells Authors: J. Christopher Ellis Tags: Software Source Type: research

Genome-wide analysis of Jatropha curcas MADS-box gene family and functional characterization of the JcMADS40 gene in transgenic rice
Physic nut (Jatropha curcas), an inedible oilseed plant, is among the most promising alternative energy sources because of its high oil content, rapid growth and extensive adaptability. Proteins encoded by MADS-b... (Source: BMC Genomics)
Source: BMC Genomics - April 28, 2020 Category: Genetics & Stem Cells Authors: Yuehui Tang, Jian Wang, Xinxin Bao, Qian Wu, Tongwen Yang, Han Li, Wenxia Wang, Yizhen Zhang, Nannan Bai, Yaxin Guan, Jiaxi Dai, Yanjie Xie, Shen Li, Rui Huo and Wei Cheng Tags: Research article Source Type: research

Effect of number of annual rings and tree ages on genomic predictive ability for solid wood properties of Norway spruce
Genomic selection (GS) or genomic prediction is considered as a promising approach to accelerate tree breeding and increase genetic gain by shortening breeding cycle, but the efforts to develop routines for op... (Source: BMC Genomics)
Source: BMC Genomics - April 25, 2020 Category: Genetics & Stem Cells Authors: Linghua Zhou, Zhiqiang Chen, Lars Olsson, Thomas Grahn, Bo Karlsson, Harry X. Wu, Sven-Olof Lundqvist and Mar ía Rosario García-Gil Tags: Research article Source Type: research

A cost-sensitive online learning method for peptide identification
Post-database search is a key procedure in peptide identification with tandem mass spectrometry (MS/MS) strategies for refining peptide-spectrum matches (PSMs) generated by database search engines. Although ma... (Source: BMC Genomics)
Source: BMC Genomics - April 25, 2020 Category: Genetics & Stem Cells Authors: Xijun Liang, Zhonghang Xia, Ling Jian, Yongxiang Wang, Xinnan Niu and Andrew J. Link Tags: Methodology Article Source Type: research

Transcriptome analysis reveals differential immune related genes expression in Ruditapes philippinarum under hypoxia stress: potential HIF and NF- κB crosstalk in immune responses in clam
Hypoxia is an important environmental stressor in aquatic ecosystems, with increasingly impacts on global biodiversity. Benthic communities are the most sensitive parts of the coastal ecosystem to eutrophicati... (Source: BMC Genomics)
Source: BMC Genomics - April 23, 2020 Category: Genetics & Stem Cells Authors: Hongtao Nie, Huamin Wang, Kunyin Jiang and Xiwu Yan Tags: Research article Source Type: research

Genomic analysis of a riboflavin-overproducing Ashbya gossypii mutant isolated by disparity mutagenesis
In this study, to investigat... (Source: BMC Genomics)
Source: BMC Genomics - April 23, 2020 Category: Genetics & Stem Cells Authors: Tatsuya Kato, Junya Azegami, Ami Yokomori, Hideo Dohra, Hesham A. El Enshasy and Enoch Y. Park Tags: Research article Source Type: research