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- Author:
- Wang, Hongju; Meng, Tao; Wei, Wenqiang
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 767-780
- ISSN:
- 1976-9571
- Subject:
- Autographa californica multiple nucleopolyhedrovirus; DNA helicases; DNA replication; Escherichia coli; amino acid composition; amino acids; cluster analysis; codons; evolution; host range; humans; mice; mutation; yeasts
- Abstract:
- ... The helicase gene of Autographa californica multiple nucleopolyhedrovirus (AcMNPV) is not only involved in viral DNA replication, but also plays a role in viral host range. To identify the codon usage bias of helicase of AcMNPV, the codon usage bias of helicase was especially studies in AcMNPV and 41 reference strains of baculoviruses by calculating the codon adaptation index (CAI), effective numb ...
- DOI:
- 10.1007/s13258-018-0689-x
-
http://dx.doi.org/10.1007/s13258-018-0689-x
- Author:
- Boonkaew, Tippawan; Mongkolsiriwatana, Chareerat; Vongvanrungruang, Ananya; Srikulnath, Kornsorn; Peyachoknagul, Surin
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 735-745
- ISSN:
- 1976-9571
- Subject:
- Cocos nucifera; Elaeis guineensis; Magnoliopsida; active sites; amino acid sequences; arginine; aspartic acid; binding sites; biosynthesis; coconuts; enzymes; exons; gibberellins; histidine; introns; iron; leaves; molecular cloning; mutation; phenotype; promoter regions; proteins; serine; vascular plants
- Abstract:
- ... Coconuts (Cocos nucifera L.) are divided by the height into tall and dwarf types. In many plants the short phenotype was emerged by mutation of the GA20ox gene encoding the enzyme involved in gibberellin (GA) biosynthesis. Two CnGA20ox genes, CnGA20ox1 and CnGA20ox2, were cloned from tall and dwarf types coconut. The sequences, gene structures and expressions were compared. The structure of each g ...
- DOI:
- 10.1007/s13258-018-0682-4
-
http://dx.doi.org/10.1007/s13258-018-0682-4
- Author:
- Hyun, Young Se; Kim, Il-Hun; Song, Ha Yeun; Park, Daesik; Toda, Mamoru; Tsai, Tein-Shun; An, Hye Suck
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 799
- ISSN:
- 1976-9571
- Subject:
- Laticauda; genetic markers; microsatellite repeats; polymerase chain reaction
- Abstract:
- ... Unfortunately, one of the co-author’s family name has been incorrectly published in the original online publication. The correct family name should be Tsai. ...
- DOI:
- 10.1007/s13258-018-0671-7
-
http://dx.doi.org/10.1007/s13258-018-0671-7
- Author:
- Song, Soyoung; Oh, Dong‑Yep; Cho, Gil‑Jae; Kim, Dong Hee; Park, Yong‑Soo; Han, Kyudong
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 797
- ISSN:
- 1976-9571
- Subject:
- genes; high-throughput nucleotide sequencing; horses; temperament
- Abstract:
- ... There is a minor spelling error in one of corresponding authors’ name in this article. Young-Soo Park should be Yong-Soo Park. Also, in Conflict of interest, “Young-Soo Park declares that he has no conflict of interest.” should be “Yong-Soo Park declares that he has no conflict of interest.” The author’s name is now updated in the author group, affiliation section and in conflict of interest in th ...
- DOI:
- 10.1007/s13258-017-0627-3
-
http://dx.doi.org/10.1007/s13258-017-0627-3
- Author:
- Dong, Chengguang; Wang, Juan; Chen, Quanjia; Yu, Yu; Li, Baocheng
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 725-734
- ISSN:
- 1976-9571
- Subject:
- Gossypium hirsutum; alleles; chromosome mapping; genetic markers; genetic variation; linear models; linkage disequilibrium; loci; marker-assisted selection; microsatellite repeats; phenotype; phenotypic variation; population structure; prediction; quantitative trait loci; yield components; China
- Abstract:
- ... Association mapping based on linkage disequilibrium provides a promising tool for dissecting the genetic basis underlying complex traits. To reveal the genetic variations of yield and yield components traits in upland cotton, 403 upland cotton accessions were collected and analyzed by 560 genome-wide simple sequence repeats (SSRs). A diverse panel consisting of 403 upland cotton accessions was gro ...
- DOI:
- 10.1007/s13258-018-0678-0
-
http://dx.doi.org/10.1007/s13258-018-0678-0
- Author:
- Yu, Yun-Sang; Kim, Jin-Se; Jiménez, Brenda Irene Medina; Kim, Tae-Wuk; Cho, Sung-Jin
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 747-753
- ISSN:
- 1976-9571
- Subject:
- Perionyx excavatus; arthropods; earthworms; gene expression regulation; genes; head; reverse transcriptase polymerase chain reaction; tail; transcription (genetics)
- Abstract:
- ... The earthworm Perionyx excavatus is a species highly capable of bidirectional regeneration. Pair-rule genes are thought to have an ancestral function in arthropod segmentation. However, orthologs in annelids (i.e. Capitella teleta) do not exhibit segmental expression in the ectoderm or mesoderm. Their role in regeneration is currently unclear. Here, we report the expression profile of primary pair ...
- DOI:
- 10.1007/s13258-018-0683-3
-
http://dx.doi.org/10.1007/s13258-018-0683-3
- Author:
- Wang, Wei; Wang, Huai; Tang, Hui; Gan, Jia; Shi, Changgeng; Lu, Qing; Fang, Donghui; Yi, Jun; Fu, Maozhong
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 715-724
- ISSN:
- 1976-9571
- Subject:
- cattle; cattle breeds; chromosomes; gene expression; genes; genomics; marker-assisted selection; population structure; sequence analysis; single nucleotide polymorphism; transcriptomics; China
- Abstract:
- ... There are abundant cattle breeds/populations in China, and the systematic discovery of genomic variants is essential for performing the marker assisted selection and conservation of genetic resources. In the present study, we employed whole transcriptome sequencing (RNA-Seq) technology for revealing genetic structure among six Chinese cattle populations according to transcriptome-wide SNPs and gen ...
- DOI:
- 10.1007/s13258-018-0677-1
- PubMed:
- 29934811
- PubMed Central:
- PMC6015124
-
http://dx.doi.org/10.1007/s13258-018-0677-1
- Author:
- Nam, Gyu-Hwi; Gim, Jeong-An; Mishra, Anshuman; Ahn, Kung; Kim, Suhkmann; Kim, Do-Hyung; Cha, Hee-Jae; Choi, Yung Hyun; Park, Chan-Il; Kim, Heui-Soo
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 707-713
- ISSN:
- 1976-9571
- Subject:
- DNA; Paralichthys olivaceus; exons; flounder; gene ontology; genomics; immunology; mortality; terminal repeat sequences; transcriptomics; transposons; East Asia
- Abstract:
- ... Transposable elements (TEs) are mobile genetic sequences that comprise a large portion of vertebrate genomes. The olive flounder (Paralichthys olivaceus) is a valuable marine resource in East Asia. The scope of most genomic studies on the olive flounder is limited to its immunology as their focus is the prevention of mass mortality of this species. Thus, for a broader understanding of the species, ...
- DOI:
- 10.1007/s13258-018-0676-2
-
http://dx.doi.org/10.1007/s13258-018-0676-2
- Author:
- Hu, Ke; Li, Leina; Liao, Yaping; Liang, Meng
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 781-787
- ISSN:
- 1976-9571
- Subject:
- Western blotting; bioinformatics; cell lines; cell proliferation; genes; male fertility; males; mechanism of action; messenger RNA; mice; microarray technology; non-coding RNA; quantitative polymerase chain reaction; reverse transcriptase polymerase chain reaction; spermatocytes; spermatogenesis; spermatogonia; spermatozoa; stem cells
- Abstract:
- ... Spermatogenesis is a process which includes the following phases: spermatogonial stem cell proliferation and differentiation, spermatogonia, spermatocyte, spermatid and mature sperm. Spermatogenic failure is the important factor resulting in male infertility. Recent studies showed that long noncoding RNA (lncRNA) have been found to be involved in the regulation of male reproduction. However, lncRN ...
- DOI:
- 10.1007/s13258-018-0690-4
-
http://dx.doi.org/10.1007/s13258-018-0690-4
- Author:
- Jang, Dongsung; Yoon, Joon; Taye, Mengistie; Lee, Wonseok; Kwon, Taehyung; Shim, Seunghyun; Kim, Heebal
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 701-705
- ISSN:
- 1976-9571
- Subject:
- Duroc; breeding programs; genes; genetic variation; genome-wide association study; genomics; intramuscular fat; meat tenderness; pork; pork quality; single nucleotide polymorphism; statistical models; swine
- Abstract:
- ... Genome-wide association studies (GWAS) have been steadily used for identification of genomic links to disease and various economical traits. Of those traits, a tenderness of pork is one of the most important factors in quality evaluation of consumers. In this study, we use two pig breed populations; Berkshire is known for its excellent meat quality and Duroc which is known for its high intramuscul ...
- DOI:
- 10.1007/s13258-018-0672-6
-
http://dx.doi.org/10.1007/s13258-018-0672-6
- Author:
- Hwang, Sun-Goo; Kim, Kyung-Hee; Lee, Byung-Moo; Moon, Jun-Cheol
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 755-766
- ISSN:
- 1976-9571
- Subject:
- Zea mays; absorption; algorithms; biochemical pathways; carbohydrates; computer software; corn; developmental stages; gene expression; gene expression regulation; messenger RNA; multigene family; oxygen; plant development; planting; quality control; regulatory sequences; root tips; sequence analysis; shoots; statistical analysis; transcription factors; transcriptomics
- Abstract:
- ... The root plays an important role during plant development and growth, i.e., the plant body maintenance, nutrient storage, absorption of water, oxygen and nutrient from the soil, and storage of water and carbohydrates, etc. The objective of this study was attempted to determine root-specific genes at the initial developmental stages of maize by using network-based transcriptome analysis. The raw da ...
- DOI:
- 10.1007/s13258-018-0687-z
-
http://dx.doi.org/10.1007/s13258-018-0687-z
- Author:
- Huang, Tao; Wang, Ya-dong; Xue, Ming-ming; Feng, Xue; Sun, Cai-Xia; Wang, An-si; Xie, Shu-yu; Zhang, Meng; Sun, Gui-Rong; Li, Ming
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 687-700
- ISSN:
- 1976-9571
- Subject:
- DNA replication; Oryctolagus cuniculus; animal ovaries; biosynthesis; cell cycle; developmental stages; fructose; gene expression; gene expression regulation; genes; livestock; mannose; oocytes; pyruvic acid; rabbits; reproduction; steroid hormones; transcriptomics
- Abstract:
- ... Reproduction is a complex physiological process that is regulated by multiple genes and pathways. Compared with studies of common livestock, fewer studies of genes related to the fertility of rabbits (Oryctolagus cuniculus) have been reported, and the molecular mechanism of their high productivity is still poorly understood. To identify candidate genes associated with development and prolificacy i ...
- DOI:
- 10.1007/s13258-018-0651-y
-
http://dx.doi.org/10.1007/s13258-018-0651-y
- Author:
- Khan, Muhammad Ismail; Choi, Soyeon; Zahid, Muhammad; Ahmad, Habib; Ali, Roshan; Jelani, Musharraf; Kang, Changsoo
- Source:
- Genes & genomics 2018 v.40 no.7 pp. 789-795
- ISSN:
- 1976-9571
- Subject:
- bioinformatics; collagen; databases; fibronectins; genes; heterozygosity; keratin; missense mutation; pathogenicity; phenotype; prediction; sequence analysis; skin diseases
- Abstract:
- ... Palmoplantar keratoderma (PPK) is a rare group of excessive skin disorder characterized by thickness over the palms and soles. The striate palmoplantar keratoderma (PPKS) is a form in which hyperkeratotic lesions are restricted to the pressure regions extending longitudinally in the length of each finger to the palm. Dominantly inherited mutations in genes including desmoglein 1, desmoplakin and k ...
- DOI:
- 10.1007/s13258-018-0695-z
-
http://dx.doi.org/10.1007/s13258-018-0695-z