• 제목/요약/키워드: Complete genome sequence

검색결과 316건 처리시간 0.024초

Complete genome sequence of Paenibacillus konkukensis sp. nov. SK3146 as a potential probiotic strain

  • Jung, Hae-In;Park, Sungkwon;Niu, Kai-Min;Lee, Sang-Won;Kothari, Damini;Yi, Kwon Jung;Kim, Soo-Ki
    • Journal of Animal Science and Technology
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    • 제63권3호
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    • pp.666-670
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    • 2021
  • Paenibacillus konkukensis sp. nov., SK3146 is a novel strain isolated from a pig feed. Here, we present complete genome sequence of SK3146. The genome consists of a single circular genome measuring 7,968,964 bp in size with an average guanine + cytosine (G+C) content of 53.4%. Genomic annotation revealed that the strain encodes 151 proteins related to hydrolases (EC3), which was higher than those in Bacillus subtilis and Escherichia coli. Diverse kinds of hydrolases including galactosidase, glucosidase, cellulase, lipase, xylanase, and protease were found in the genome of SK3146, coupled with one bacteriocin encoding gene. The complete genome sequence of P. konkukensis SK3146 indicates the immense probiotic potential of the strain with nutrient digestibility and antimicrobial activity functions.

Complete chloroplast genome sequence of Clematis calcicola (Ranunculaceae), a species endemic to Korea

  • Beom Kyun PARK;Young-Jong JANG;Dong Chan SON;Hee-Young GIL;Sang-Chul KIM
    • 식물분류학회지
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    • 제52권4호
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    • pp.262-268
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    • 2022
  • The complete chloroplast genome (cp genome) sequence of Clematis calcicola J. S. Kim (Ranunculaceae) is 159,655 bp in length. It consists of large (79,451 bp) and small (18,126 bp) single-copy regions and a pair of identical inverted repeats (31,039 bp). The genome contains 92 protein-coding genes, 36 transfer RNA genes, eight ribosomal RNA genes, and two pseudogenes. A phylogenetic analysis based on the cp genome of 19 taxa showed high similarity between our cp genome and data published for C. calcicola, which is recognized as a species endemic to the Korean Peninsula. The complete cp genome sequence of C. calcicola reported here provides important information for future phylogenetic and evolutionary studies of Ranunculaceae.

Complete Genome Sequence of Bacillus subtilis NIB353 Isolated from Nuruk

  • Jeong-Ah Yoon;Se-Young Kwun;Eun-Hee Park;Myoung-Dong Kim
    • 한국미생물·생명공학회지
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    • 제51권3호
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    • pp.289-292
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    • 2023
  • Thermotolerant Bacillus subtilis NIB353 was isolated from Nuruk, a traditional Korean fermentation starter. The complete B. subtilis NIB353 genome sequence was obtained using MinION and Illumina (MiSeq) platforms. The B. subtilis NIB353 genome sequence was 4,247,447 bp with a GC content of 43%. The B. subtilis NIB353 strain exhibited orthologous average nucleotide identity values of 98.39% and 98.38% with B. subtilis 168 and B. subtilis ATCC6051a, respectively. The genome has been deposited in GenBank under the accession number NZ_CP089148.1.

Complete genome sequences of Lactococcus lactis JNU 534, a potential food and feed preservative

  • Sangdon, Ryu;Kiyeop, Kim;Dae-Yeon, Cho;Younghoon, Kim;Sejong, Oh
    • Journal of Animal Science and Technology
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    • 제64권3호
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    • pp.599-602
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    • 2022
  • A new bacteriocin-producing lactic acid bacteria isolated from kimchi was identified as Lactococcus lactis JNU 534, presenting preservative properties for foods of animal origin. In this study, we present the complete genome sequence of the bacterial strain JNU 534. The final complete genome assembly consists of one circular chromosome (2,443,687 bp [base pair]) with an overall GC (guanine-cytosine) content of 35.2%, one circular plasmid sequence (46,387bp) with a GC content of 34.5%, and one circular contig sequence (7,666 bp) with a GC content of 36.2%.

Complete Genome Sequence of Cytobacillus firmus T8, Isolated from the Rhizosphere of Pepper (Capsicum annuum L.)

  • Da-Ryung Jung;GyuDae Lee;Tino Bashizi;Jae-Ho Shin
    • 한국미생물·생명공학회지
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    • 제51권4호
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    • pp.548-550
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    • 2023
  • This study presents the complete genome sequence of Cytobacillus firmus strain T8, which was obtained from the rhizosphere soil of pepper (Capsicum annuum L.). The genome of the strain consists of a single chromosome with a total size of 4,383,751 bp and the GC content of 42%.

Complete genome and two plasmids sequences of Lactiplantibacillus plantarum L55 for probiotic potentials

  • Bogun Kim;Kiyeop Kim;Xiaoyue Xu;Hyunju Lee;Duleepa Pathiraja;Dong-June Park;In-Geol Choi;Sejong Oh
    • Journal of Animal Science and Technology
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    • 제65권6호
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    • pp.1341-1344
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    • 2023
  • In this study, we report the complete genome sequence of Lactiplantibacillus plantarum L55, a probiotic strain of lactic acid bacteria isolated from kimchi. The genome consists of one circular chromosome (2,077,416 base pair [bp]) with a guanine cytosine (GC) content of 44.5%, and two circular plasmid sequences (54,267 and 19,592 bp, respectively). We also conducted a comprehensive analysis of the genome, which identified the presence of functional genes, genomic islands, and antibiotic-resistance genes. The genome sequence data presented in this study provide insights into the genetic basis of L. plantarum L55, which could be beneficial for the future development of probiotic applications.

Determination of Complete Genome Sequence of Korean Isolate of Potato virus X

  • Choi, Sun-Hee;Ryu, Ki-Hyun
    • The Plant Pathology Journal
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    • 제24권3호
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    • pp.361-364
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    • 2008
  • The complete nucleotide sequences of a Korean isolate of Potato virus X(PVX-Kr) has been determined. Full-length cDNA of PVX-Kr has been directly amplified by long template reverse transcription and polymerase chain reaction(RT-PCR) using virus specific 5'-end primer and 3'-end primer, and then constructed in a plasmid vector. Consecutive subclones of a full-length cDNA clone were constructed to identify whole genome sequence of the virus. Total nucleotide sequences of genome of PVX-Kr were 6,435 excluding one adenine at poly A tail, and genome organization was identical with that of typical PVX species. Comparison of whole genome sequence of PVX-Kr with those of European and South American isolates showed 95.4-96.8% and 77.4-77.9%, in nucleotide similarity, respectively. Sequenced PVX-Kr in this study and twelve isolates already reported could be divided into two subgroups in phylogeny based on their complete nucleotide sequences. Phylogenetic tree analysis demonstrated that PVX-Kr was clustered with European and Asian isolates(Taiwan, os, bs, Kr, S, X3, UK3, ROTH1, Tula) in the same subgroup and South American isolates(CP, CP2, CP4, HB) were clustered in the other subgroup.

DNA Chip Technologies

  • Hwang, Seoung-Yong;Lim, Geun-Bae
    • Biotechnology and Bioprocess Engineering:BBE
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    • 제5권3호
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    • pp.159-163
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    • 2000
  • The genome sequencing project has generated and will contitute to generate enormous amounts of sequence data. Since the first complete genome sequence of bacterium Haemophilus in fluenzae was published in 1995, the complete genome sequences of 2 eukaryotic and about 22 prokaryotic organisms have detemined. Given this everincreasing amounts of sequence information, new strategies are necessary to efficiently pursue the phase of the geome project- the elucidation of gene expression patterns and gene product function on a whole genome scale. In order to assign functional information to the genome sequence, DNA chip technology was developed to efficienfly identify the differential expression pattern of indepondent biogical samples. DNA chip provides a new tool for genome expreesion analysis that may revolutionize revolutionize many aspects of human kife including mew surg discovery and human disease diagnostics.

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Complete Genome Sequence Analysis of Two Divergent Groups of Sweet potato chlorotic fleck virus Isolates Collected from Korea

  • Kwak, Hae-Ryun;Kim, Jaedeok;Kim, Mikyeong;Seo, Jang-Kyun;Kim, Jeong-Soo;Choi, Hong-Soo
    • The Plant Pathology Journal
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    • 제34권5호
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    • pp.451-457
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    • 2018
  • The Sweet potato chlorotic fleck virus (SPCFV), of the genus Carlavirus (family Betaflexiviridae), was first detected as one of several viruses infecting sweet potatoes (Ipomea batatas L.) in Korea. Out of 154 sweet potato samples collected in 2012 that were showing virus-like symptoms, 47 (31%) were infected with SPCFV, along with other viruses. The complete genome sequences of four SPCFV isolates were determined and analyzed using previously reported genome sequences. The complete genomes were found to contain 9,104-9,108 nucleotides, excluding the poly-A tail, containing six putative open reading frames (ORFs). Further, the SPCFV Korean isolates were divided into two groups (Group I and Group II) by phylogenetic analysis based on the complete nucleotide sequences; Group I and Group II had low nucleotide sequence identities of about 73%. For the first time, we determined the complete genome sequence for the Group II SPCFV isolates. The amino acid sequence identity in coat proteins (CP) between the two groups was over 90%, whereas the amino acid sequence identity in other proteins was less than 80%. In addition, SPCFV Korean isolates had a low amino acid sequence identity (61% CPs and 47% in the nucleotide-binding protein [NaBp] region) to that of Melon yellowing-associated virus (MYaV), a typical Carlavirus.

The complete chloroplast genome sequence of Korean Neolitsea sericea (Lauraceae)

  • PARK, Yoo-Jung;CHEON, Kyeong-Sik
    • 식물분류학회지
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    • 제51권3호
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    • pp.332-336
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    • 2021
  • The complete chloroplast (cp) genome sequence of Neolitsea sericea was determined by Illumina sequencing. The complete cp genome was 152,446bp in length, containing a large single-copy region of 93,796 bp and a small single-copy region of 18,506bp, which were separated by a pair of 20,072bp inverted repeats. A total of 112 unique genes were annotated, including 78 protein-coding genes (PCGs), 30 transfer RNAs, and four ribosomal RNAs. Among the PCGs, 18 genes contained one or two introns. A very low level of sequence variation between two cp genomes of N. sericea was found with seven insertions or deletions and only one single nucleotide polymorphism. An analysis using the maximum likelihood method showed that N. sericea was closely related to Actinodaphne trichocarpa.