Skip to main content

Articles

Page 84 of 338

  1. Pineapple is the most important crop with CAM photosynthesis, but its molecular biology is underexplored. MADS-box genes are crucial transcription factors involving in plant development and several biological ...

    Authors: Xiaodan Zhang, Mahpara Fatima, Ping Zhou, Qing Ma and Ray Ming
    Citation: BMC Genomics 2020 21:8
    Content type: Research article Published on:

  2. The broad host range pathogen Sclerotinia sclerotiorum infects over 400 plant species and causes substantial yield losses in crops worldwide. Secondary metabolites are known to play important roles in the virulen...

    Authors: Carolyn Graham-Taylor, Lars G. Kamphuis and Mark C. Derbyshire
    Citation: BMC Genomics 2020 21:7
    Content type: Research article Published on:

  3. Rhodococci are industrially important soil-dwelling Gram-positive bacteria that are well known for both nitrile hydrolysis and oxidative metabolism of aromatics. Rhodococcus rhodochrous ATCC BAA-870 is capable of...

    Authors: Joni Frederick, Fritha Hennessy, Uli Horn, Pilar de la Torre Cortés, Marcel van den Broek, Ulrich Strych, Richard Willson, Charles A. Hefer, Jean-Marc G. Daran, Trevor Sewell, Linda G. Otten and Dean Brady
    Citation: BMC Genomics 2020 21:3
    Content type: Research article Published on:

  4. The clinical success of immune checkpoint inhibitors demonstrates that reactivation of the human immune system delivers durable responses for some patients and represents an exciting approach for cancer treatm...

    Authors: Wenyan Zhong, Jeremy S. Myers, Fang Wang, Kai Wang, Justin Lucas, Edward Rosfjord, Judy Lucas, Andrea T. Hooper, Sharon Yang, Lu Anna Lemon, Magali Guffroy, Chad May, Jadwiga R. Bienkowska and Paul A. Rejto
    Citation: BMC Genomics 2020 21:2
    Content type: Research article Published on:

  5. Following the publication of the original article [1], the authors reported an error in Fig. 2 of the PDF version of their article.

    Authors: Jason D. Maarsingh, Shanshan Yang, Jin G. Park and Shelley E. Haydel
    Citation: BMC Genomics 2019 21:1
    Content type: Correction Published on:

    The original article was published in BMC Genomics 2019 20:942

  6. Whole-genome shotgun sequencing, which stitches together millions of short sequencing reads into a single genome, ushered in the era of modern genomics and led to a rapid expansion of the number of genome sequ...

    Authors: Kelsi A. Lindblad, Jananan S. Pathmanathan, Sandrine Moreira, John R. Bracht, Robert P. Sebra, Elizabeth R. Hutton and Laura F. Landweber
    Citation: BMC Genomics 2019 20:1037
    Content type: Research article Published on:

  7. Alternaria brassicae, a necrotrophic pathogen, causes Alternaria Leaf Spot, one of the economically important diseases of Brassica crops. Many other Alternaria spp. such as A. brassicicola and A. alternata are kn...

    Authors: Sivasubramanian Rajarammohan, Kumar Paritosh, Deepak Pental and Jagreet Kaur
    Citation: BMC Genomics 2019 20:1036
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2020 21:82

  8. Fargesia macclureana (Poaceae) is a woody bamboo species found on the Qinghai–Tibet Plateau (QTP) approximately 2000 ~ 3800 m above sea level. It rarely blossoms in the QTP, but it flowered 20 days after growing ...

    Authors: Ying Li, Chunxia Zhang, Kebin Yang, Jingjing Shi, Yulong Ding and Zhimin Gao
    Citation: BMC Genomics 2019 20:1035
    Content type: Research article Published on:

  9. Grape buds exhibit non-uniform, or delayed, break in early spring in subtropical regions because the accumulation of chilling is insufficient. Hydrogen cyanamide (H2CN2, HC) can partially replace chilling to effe...

    Authors: Dong Liang, Xiaojing Huang, Yanqiu Shen, Tian Shen, Huifen Zhang, Lijin Lin, Jin Wang, Qunxian Deng, Xiulan Lyu and Hui Xia
    Citation: BMC Genomics 2019 20:1034
    Content type: Research article Published on:

  10. Production conditions of layer chicken can vary in terms of temperature or diet energy content compared to the controlled environment where pure-bred selection is undertaken. The aim of this study was to bette...

    Authors: F. Jehl, C. Désert, C. Klopp, M. Brenet, A. Rau, S. Leroux, M. Boutin, L. Lagoutte, K. Muret, Y. Blum, D. Esquerré, D. Gourichon, T. Burlot, A. Collin, F. Pitel, A. Benani…
    Citation: BMC Genomics 2019 20:1033
    Content type: Research article Published on:

  11. MYC transcriptional factors are members of the bHLH (basic helix-loop-helix) superfamily, and play important roles in plant growth and development. Recent studies have revealed that some MYCs are involved in the ...

    Authors: Jian-fang Bai, Yu-kun Wang, Li-ping Guo, Xiao-ming Guo, Hao-yu Guo, Shao-hua Yuan, Wen-jing Duan, Zihan Liu, Chang-ping Zhao, Feng-ting Zhang and Li-ping Zhang
    Citation: BMC Genomics 2019 20:1032
    Content type: Research article Published on:

  12. The proximal femoral head separation (FHS) or epiphysiolysis is a prevalent disorder affecting the chicken femur epiphysis, being considered a risk factor to infection which can cause bacterial chondronecrosis...

    Authors: Jane de Oliveira Peixoto, Igor Ricardo Savoldi, Adriana Mércia Guaratini Ibelli, Maurício Egídio Cantão, Fátima Regina Ferreira Jaenisch, Poliana Fernanda Giachetto, Matthew Lee Settles, Ricardo Zanella, Jorge Augusto Petroli Marchesi, José Rodrigo Pandolfi, Luiz Lehmann Coutinho and Mônica Corrêa Ledur
    Citation: BMC Genomics 2019 20:1031
    Content type: Research article Published on:

  13. Mycobacterium pinnipedii, a member of the Mycobacterium tuberculosis Complex (MTBC), is capable of infecting several host species, including humans. Recently, ancient DNA from this organism was recovered from pre...

    Authors: Taiana T. Silva-Pereira, Cássia Y. Ikuta, Cristina K. Zimpel, Naila C. S. Camargo, Antônio F. de Souza Filho, José S. Ferreira Neto, Marcos B. Heinemann and Ana M. S. Guimarães
    Citation: BMC Genomics 2019 20:1030
    Content type: Research article Published on:

  14. Behavior reflects an organism’s health status. Many organisms display a generalized suite of behaviors that indicate infection or predict infection susceptibility. We apply this concept to honey bee aggression...

    Authors: Clare C. Rittschof, Benjamin E. R. Rubin and Joseph H. Palmer
    Citation: BMC Genomics 2019 20:1029
    Content type: Research article Published on:

  15. The mammalian intestine is a complex biological system that exhibits functional plasticity in its response to diverse stimuli to maintain homeostasis. To improve our understanding of this plasticity, we perfor...

    Authors: Nirupama Benis, Jerry M. Wells, Mari A. Smits, Soumya Kanti Kar, Bart van der Hee, Vitor A. P. Martins dos Santos, Maria Suarez-Diez and Dirkjan Schokker
    Citation: BMC Genomics 2019 20:1028
    Content type: Research article Published on:

  16. Europeans and American Indians were major genetic ancestry of Hispanics in the U.S. These ancestral groups have markedly different incidence rates and outcomes in many types of cancers. Therefore, the genetic ...

    Authors: Li-Ju Wang, Catherine W. Zhang, Sophia C. Su, Hung-I H. Chen, Yu-Chiao Chiu, Zhao Lai, Hakim Bouamar, Amelie G. Ramirez, Francisco G. Cigarroa, Lu-Zhe Sun and Yidong Chen
    Citation: BMC Genomics 2019 20(Suppl 12):1007
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 12

  17. The genome architecture mapping (GAM) technique can capture genome-wide chromatin interactions. However, besides the known systematic biases in the raw GAM data, we have found a new type of systematic bias. It...

    Authors: Tong Liu and Zheng Wang
    Citation: BMC Genomics 2019 20(Suppl 12):1006
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 12

  18. The goal of this editorial is to summarize the 2019 International Conference on Intelligent Biology and Medicine (ICIBM 2019) conference that took place on June 9–11, 2019 in The Ohio State University, Columbu...

    Authors: Ewy Mathé, Chi Zhang, Kai Wang, Xia Ning, Yan Guo and Zhongming Zhao
    Citation: BMC Genomics 2019 20(Suppl 12):1005
    Content type: Introduction Published on:

    This article is part of a Supplement: Volume 20 Supplement 12

    The Correction to this article has been published in BMC Genomics 2020 21:342

  19. RNA-binding proteins (RBPs) are crucial in modulating RNA metabolism in eukaryotes thereby controlling an extensive network of RBP-RNA interactions. Although previous studies on the conservation of RBP targets...

    Authors: Aarthi Ramakrishnan and Sarath Chandra Janga
    Citation: BMC Genomics 2019 20(Suppl 12):1004
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 12

  20. The coordination of genomic functions is a critical and complex process across biological systems such as phenotypes or states (e.g., time, disease, organism, environmental perturbation). Understanding how the...

    Authors: Nam D. Nguyen, Ian K. Blaby and Daifeng Wang
    Citation: BMC Genomics 2019 20(Suppl 12):1003
    Content type: Methodology Published on:

    This article is part of a Supplement: Volume 20 Supplement 12

  21. Bacterial cells during many replication cycles accumulate spontaneous mutations, which result in the birth of novel clones. As a result of this clonal expansion, an evolving bacterial population has different clo...

    Authors: Wazim Mohammed Ismail and Haixu Tang
    Citation: BMC Genomics 2019 20(Suppl 12):1002
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 12

  22. Inadvertent sample swaps are a real threat to data quality in any medium to large scale omics studies. While matches between samples from the same individual can in principle be identified from a few well char...

    Authors: Maximillian Westphal, David Frankhouser, Carmine Sonzone, Peter G. Shields, Pearlly Yan and Ralf Bundschuh
    Citation: BMC Genomics 2019 20(Suppl 12):1001
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 12

  23. The rapid development of Next-Generation Sequencing technologies enables sequencing genomes with low cost. The dramatically increasing amount of sequencing data raised crucial needs for efficient compression a...

    Authors: Tao Tang, Yuansheng Liu, Buzhong Zhang, Benyue Su and Jinyan Li
    Citation: BMC Genomics 2019 20(Suppl 10):978
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 10

  24. Pseudouridine modification is most commonly found among various kinds of RNA modification occurred in both prokaryotes and eukaryotes. This biochemical event has been proved to occur in multiple types of RNAs,...

    Authors: Thanh-Hoang Nguyen-Vo, Quang H. Nguyen, Trang T.T. Do, Thien-Ngan Nguyen, Susanto Rahardja and Binh P. Nguyen
    Citation: BMC Genomics 2019 20(Suppl 10):971
    Content type: Methodology Published on:

    This article is part of a Supplement: Volume 20 Supplement 10

  25. Read alignment and transcript assembly are the core of RNA-seq analysis for transcript isoform discovery. Nonetheless, current tools are not designed to be scalable for analysis of full-length bulk or single c...

    Authors: Andrian Yang, Abhinav Kishore, Benjamin Phipps and Joshua W. K. Ho
    Citation: BMC Genomics 2019 20(Suppl 10):927
    Content type: Software Published on:

    This article is part of a Supplement: Volume 20 Supplement 10

  26. Identification of antibiotic resistance genes from environmental samples has been a critical sub-domain of gene discovery which is directly connected to human health. However, it is drawing extraordinary atten...

    Authors: Haobin Yao and Siu-Ming Yiu
    Citation: BMC Genomics 2019 20(Suppl 10):914
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 10

  27. Super-enhancer RNAs (seRNAs) are a kind of noncoding RNA transcribed from super-enhancer regions. The regulation mechanism and functional role of seRNAs are still unclear. Although super-enhancers play a criti...

    Authors: Hao-Chun Chang, Hsuan-Cheng Huang, Hsueh-Fen Juan and Chia-Lang Hsu
    Citation: BMC Genomics 2019 20(Suppl 10):896
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 10

  28. Hip dysplasia and osteoarthritis continue to be prevalent problems in veterinary and human medicine. Canine hip dysplasia is particularly problematic as it massively affects several large-sized breeds and can ...

    Authors: Lea Mikkola, Saila Holopainen, Tiina Pessa-Morikawa, Anu K. Lappalainen, Marjo K. Hytönen, Hannes Lohi and Antti Iivanainen
    Citation: BMC Genomics 2019 20:1027
    Content type: Research article Published on:

  29. Non-key traits (NKTs) in radiata pine (Pinus radiata D. Don) refer to traits other than growth, wood density and stiffness, but still of interest to breeders. Branch-cluster frequency, stem straightness, external...

    Authors: Yongjun Li, Jaroslav Klápště, Emily Telfer, Phillip Wilcox, Natalie Graham, Lucy Macdonald and Heidi S. Dungey
    Citation: BMC Genomics 2019 20:1026
    Content type: Research article Published on:

  30. Agropyron cristatum (L.) Gaertn. (2n = 4x = 28; genomes PPPP) is a wild relative of common wheat (Triticum aestivum L.) and provides many desirable genetic resources for wheat improvement. However, there is still...

    Authors: Shenghui Zhou, Jinpeng Zhang, Haiming Han, Jing Zhang, Huihui Ma, Zhi Zhang, Yuqing Lu, Weihua Liu, Xinming Yang, Xiuquan Li and Lihui Li
    Citation: BMC Genomics 2019 20:1025
    Content type: Research article Published on:

  31. Transcriptomic responses to immune stimulation were investigated in coho salmon (Oncorhynchus kisutch) with distinct growth phenotypes. Wild-type fish were contrasted to strains with accelerated growth arising ei...

    Authors: Jin-Hyoung Kim, Daniel J. Macqueen, James R. Winton, John D. Hansen, Hyun Park and Robert H. Devlin
    Citation: BMC Genomics 2019 20:1024
    Content type: Research article Published on:

  32. Cell-free DNA (cfDNA), present in circulating blood plasma, contains information about prenatal health, organ transplant reception, and cancer presence and progression. Originally developed for the genomic ana...

    Authors: Christopher J. Troll, Joshua Kapp, Varsha Rao, Kelly M. Harkins, Charles Cole, Colin Naughton, Jessica M. Morgan, Beth Shapiro and Richard E. Green
    Citation: BMC Genomics 2019 20:1023
    Content type: Methodology article Published on:

  33. In 2017, World Health Organization (WHO) published a catalogue of 12 families of antibiotic-resistant “priority pathogens” that are posing the greatest threats to human health. Six of these dreaded pathogens a...

    Authors: Tungadri Bose, K. V. Venkatesh and Sharmila S. Mande
    Citation: BMC Genomics 2019 20:1022
    Content type: Research article Published on:

  34. Tumor purity is the percent of cancer cells present in a sample of tumor tissue. The non-cancerous cells (immune cells, fibroblasts, etc.) have an important role in tumor biology. The ability to determine tumo...

    Authors: Yuanyuan Li, David M. Umbach, Adrienna Bingham, Qi-Jing Li, Yuan Zhuang and Leping Li
    Citation: BMC Genomics 2019 20:1021
    Content type: Research article Published on:

  35. The three-dimensional (3D) structure of chromatins plays significant roles during cell differentiation and development. Hi-C and other 3C-based technologies allow us to look deep into the chromatin architectur...

    Authors: Wei Gan, Juan Luo, Yi Zhou Li, Jia Li Guo, Min Zhu and Meng Long Li
    Citation: BMC Genomics 2019 20(Suppl 13):980
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 13

  36. RNA pseudoknot structures play an important role in biological processes. However, existing RNA secondary structure prediction algorithms cannot predict the pseudoknot structure efficiently. Although random ma...

    Authors: Zhang Kai, Wang Yuting, Lv Yulin, Liu Jun and He Juanjuan
    Citation: BMC Genomics 2019 20(Suppl 13):979
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 13

  37. Interactions between protein and nucleic acid molecules are essential to a variety of cellular processes. A large amount of interaction data generated by high-throughput technologies have triggered the develop...

    Authors: Jinho Im, Byungkyu Park and Kyungsook Han
    Citation: BMC Genomics 2019 20(Suppl 13):967
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 13

  38. Proteins play essential roles in almost all life processes. The prediction of protein function is of significance for the understanding of molecular function and evolution. Network alignment provides a fast an...

    Authors: Jialu Hu, Junhao He, Jing Li, Yiqun Gao, Yan Zheng and Xuequn Shang
    Citation: BMC Genomics 2019 20(Suppl 13):932
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 13

  39. To infer gene regulatory networks (GRNs) from gene-expression data is still a fundamental and challenging problem in systems biology. Several existing algorithms formulate GRNs inference as a regression proble...

    Authors: Xiang Chen, Min Li, Ruiqing Zheng, Fang-Xiang Wu and Jianxin Wang
    Citation: BMC Genomics 2019 20(Suppl 13):929
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 13

  40. Identification of protein-protein interactions (PPIs) is crucial for understanding biological processes and investigating the cellular functions of genes. Self-interacting proteins (SIPs) are those in which mo...

    Authors: Zhan-Heng Chen, Zhu-Hong You, Li-Ping Li, Yan-Bin Wang, Yu Qiu and Peng-Wei Hu
    Citation: BMC Genomics 2019 20(Suppl 13):928
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 13

  41. Genomic studies demonstrate that components of virulence mechanisms in filamentous eukaryotic pathogens (FEPs, fungi and oomycetes) of plants are often highly conserved, or found in gene families that include ...

    Authors: Eswari PJ Pandaranayaka, Omer Frenkel, Yigal Elad, Dov Prusky and Arye Harel
    Citation: BMC Genomics 2019 20:1020
    Content type: Research article Published on:

  42. Infectious disease outbreaks form major setbacks to aquaculture production and to further development of this important sector. Cyprinid herpes virus-3 (CyHV-3) is a dsDNA virus widely hampering production of ...

    Authors: Roni Tadmor-Levi, Adi Doron-Faigenboim, Evgeniya Marcos-Hadad, Jules Petit, Gideon Hulata, Maria Forlenza, Geert F. Wiegertjes and Lior David
    Citation: BMC Genomics 2019 20:1019
    Content type: Research article Published on:

  43. Interrogation of whole exome and targeted sequencing NGS data is rapidly becoming a preferred approach for the exploration of large cohorts in the research setting and importantly in the context of precision m...

    Authors: Samuel Valentini, Tarcisio Fedrizzi, Francesca Demichelis and Alessandro Romanel
    Citation: BMC Genomics 2019 20:1018
    Content type: Software Published on:

    The Correction to this article has been published in BMC Genomics 2024 25:463

  44. Traces of interbreeding of Neanderthals and Denisovans with modern humans in the form of archaic DNA have been detected in the genomes of present-day human populations outside sub-Saharan Africa. Up to now, on...

    Authors: Robert Bücking, Murray P Cox, Georgi Hudjashov, Lauri Saag, Herawati Sudoyo and Mark Stoneking
    Citation: BMC Genomics 2019 20:1017
    Content type: Research Article Published on:

    The Correction to this article has been published in BMC Genomics 2020 21:55

  45. White root rot disease caused by Rosellinia necatrix is one of the most important threats affecting avocado productivity in tropical and subtropical climates. Control of this disease is complex and nowadays, lies...

    Authors: A. Zumaquero, S. Kanematsu, H. Nakayashiki, A. Matas, E. Martínez-Ferri, A. Barceló-Muñóz, F. Pliego-Alfaro, C. López-Herrera, F. M. Cazorla and C. Pliego
    Citation: BMC Genomics 2019 20:1016
    Content type: Research article Published on:

  47. Jatropha curcas is an oil-bearing plant, and has seeds with high oil content (~ 40%). Several advantages, such as easy genetic transformation and short generation duration, have led to the emergence of J. curcas

    Authors: Xuan Zhang, Bang-Zhen Pan, Maosheng Chen, Wen Chen, Jing Li, Zeng-Fu Xu and Changning Liu
    Citation: BMC Genomics 2019 20(Suppl 9):958
    Content type: Database Published on:

    This article is part of a Supplement: Volume 20 Supplement 9

  49. Euphorbiaceae is one of the largest families of flowering plants. Due to its exceptional growth form diversity and near-cosmopolitan distribution, it has attracted much interest since ancient times. SBP-box (SBP)...

    Authors: Jing Li, Xiaoyang Gao, Shiye Sang and Changning Liu
    Citation: BMC Genomics 2019 20(Suppl 9):912
    Content type: Research Published on:

    This article is part of a Supplement: Volume 20 Supplement 9

  50. Tandem mass spectrometry allows biologists to identify and quantify protein samples in the form of digested peptide sequences. When performing peptide identification, spectral library search is more sensitive ...

    Authors: Yang-Ming Lin, Ching-Tai Chen and Jia-Ming Chang
    Citation: BMC Genomics 2019 20(Suppl 9):906
    Content type: Methodology Published on:

    This article is part of a Supplement: Volume 20 Supplement 9

Featured videos

View featured videos from across the BMC-series journals

Submit manuscript

Annual Journal Metrics

  • Citation Impact 2023
    Journal Impact Factor: 3.5
    5-year Journal Impact Factor: 4.1
    Source Normalized Impact per Paper (SNIP): 1.083
    SCImago Journal Rank (SJR): 1.047

    Speed 2023
    Submission to first editorial decision (median days): 21
    Submission to acceptance (median days): 137

    Usage 2023
    Downloads: 7,167,242
    Altmetric mentions: 4,454

Follow

Sign up for article alerts and news from this journal

BMC Genomics

ISSN: 1471-2164

Contact us