Preliminary Study of BAC Library Construction in Black Tiger Shrimp, Penaeus monodon

Suwit WUTHISUTHIMETHAVEE, Takashi AOKI, Ikuo HIRONO, Anchalee TASSANAKAJON

Abstract


Availability of shrimp genome information is necessary for shrimp genetic studies and large-insert DNA clones, bacterial artificial chromosome (BACs) serve as valuable tools for obtaining genomic sequences. The construction of a BAC library was achieved from this preliminary study of P. monodon. High molecular weight (HMW) genomic DNA was isolated from abdominal muscle and the resulting hemocytes were of high quality and sufficient quantity for a BAC library construction. This BAC library was constructed from hemocyte HMW genomic DNA fragments ranging between 100 and 300 kb ligated to a pBAC-lac vector. The average insert size of the BAC clones was calculated as 100 kb ranging from 40 - 150 kb with over 50 % of the clones containing inserts larger than 100 kb. This BAC library contained approximately 60,000 BAC clones representing a 3-fold coverage of the haploid shrimp genome size. Furthermore, the consistency of BAC clones was also proven as no apparent rearrangements were observed before and after 100 generations in serial growth. From the above result, it is essential to improve the insert size and clone numbers of the BAC library to be a powerful tool in the future.


Keywords


BAC, Penaeus monodon, genome

Full Text:

PDF

References


H Ellegren, BP Chowdhary, M Johansson, L Marklund, M Fredholm, I Gustavsson and L Andersson. A primary linkage map of the porcine genome reveals a low rate of genetic recombination. Genetics 1994; 137, 1089-100.

W Vanhouten and SA Mackenzie. Construction and characterization of a common bean bacterial artificial chromosome library. Plant Mol. Biol. 1999; 40, 977-83.

H Shizuya, B Birren, UJ Kim, V Mancino, T Slepak, Y Tachiiri and M Simon. Cloning and stable maintenance of 300-kilobase-pair fragments of human DNA in Escherichia coli using an F-factor-based vector. Proc. Natl. Acad. Sci. USA. 1992; 89, 8794-97.

ED Green, HC Riethman and JE Dutchik. Detection and characterization of chimaeric yeast artificial chromosome clones. Genomics 1991; 11, 658-69.

R Dunford, L Vilageliu and G Moore. Stabilization of a yeast artificial chromosome containing plant DNA using a recombination-deficient host. Plant Mol. Biol. 1993; 21, 1187-89.

Y Umehara, A Inagaki and H Tanoue. Construction and characterization of a rice YAC library for physical mapping. Mol. Breeding. 1995; 1, 79-89.

E Bent, S Johnson and I Bancroft. BAC representation of two low-copy regions of the genome of Arabidopsis thaliana. Plant J. 1998; 13, 849-55.

SS Woo, J Jiang, BS Gill, AH Paterson and RA Wing. Construction and characterization of a bacterial artificial chromosome library of Sorghum bicolor. Nucleic Acids Res. 1994; 22, 4922-31.

HB Zhang and C Wu. BAC as tools for genome sequencing. Plant Physiol. Biochem. 2001; 39, 195-209.

S Chow, WJ Dougherty and PA Sanfer. Meitotic chromosome complements and nuclear DNA contents of four species of shrimps of the genus Penaeus. J. Crustacean Biol. 1990; 10, 29-36.

A Tassanakajorn, A Tiptawonnukul, P Supunkul, V Rimphanitchayakit, D Cook, P Jarayabhand, S Klinbunga and V Boonsaeng. Isolation and characterization of microsatellite markers in the black tiger prawn Penaeus monodon. Mol. Mar. Biol. Biotechnol. 1998; 7, 55-61.

Z Xu, AK Dhar, J Wyrzykowski and A Alcivar-Warren. Identification of abundant and informative microsatellites from shrimp (Penaeus monodon). Anim. Genet. 1999; 30, 150-6.

S Pongsomboon, V Whan, SS Moore and A Tassanakajorn. Characterization of tri- and tetranucleotide microsatellites in the black tiger prawn, Penaeus monodon. ScienceAsia 2000; 26, 1-8.

S Wuthisuthimethavee, P Lumobol, A Vanavichit and S Tragoonrung. Development of microsatellite markers in the black tiger shrimp (Penaeus monodon Fabricius). Aquaculture 2003; 224, 39-50.

SA Lehnert, KJ Wilson, K Byrne and SS Moore. Tissue-specific expressed tags from the black tiger shrimp Penaeus monodon. Mar. Biotechnol. 1999; 1, 465-76.

P Supungul, S Klinbunga, R Pichyangkura, S Jitrapakdee, I Hirono, T Aoki and A Tassanakajorn. Identification of immune-related genes in hemocytes of black tiger shrimp (Penaeus monodon). Mar. Biotechnol. 2002; 4, 487-94.

J Tong, SA Lehnert, K Byrne, HS Kwan and KH Chu. Development of polymorphic EST markers in Penaeus monodon: applications in penaeid genetics. Aquaculture 2002; 208, 69-79.

S Wuthisuthimethavee, P Lumobol, A Vanavichit and S Tragoonrung. EST-based identification of genes expressed in the branchiae of black tiger shrimp (Penaeus monodon Fabricius). ScienceAsia 2005; 31, 137-44.

K Wilson, Y Li, W Whan, S Lehnert, K Byrne, S Moore, S Pongsomboon, A Tassanakajorn, G Rosenberg, E Ballment, Z Fayazi, J Swan, M Kenway and J Benzie. Genetic mapping of the black tiger shrimp Penaeus monodon with amplified fragment length polymorphism. Aquaculture 2002; 204, 297-309.

S Wuthisuthimethavee, P Lumobol, T Toojinda, S Tragoonrung and A Vanavichit. SSLP-based genetic linkage map construction of Penaeus monodon Fabricius. ScienceAsia 2005; 31, 87-93.

HB Zhang. Construction and manipulation of large-insert bacterial clone libraries, Manual. GENEfinder Genomic Resources, Texas A&M University, USA, 2000, p. 107.

Q Tao and HB Zhang. Cloning and stable maintenance of DNA fragments over 300 kb in Escherichia coli with conventional plasmid-based vectors. Nucleic Acids Res. 1998; 26, 4901-09.

DM O’Sullivan, PJ Ripoll, M Rodgers and KJ Edwards. A maize BAC library from the European flint line F2. Theor. Appl. Genet. 2001; 103, 425-32.

K Osoegawa, PY Woon, B Zhao, E Frengen, M Tateno, JJ Catanese and PJ de Jong. An improved approach for construction of bacterial artificial chromosome libraries. Genomics 1998; 52, 1-8.

DG Peterson, JP Tomkins, DA Frisch, RA Wing and AH Paterson. Construction of plant Bacterial Artificial Chromosome (BAC) libraries: An illustrated guide. J. Agr. Genomics 2000; 5, 1-100.

O Moullet, HB Zhang and ES Lagudah. Construction and characterization of a large DNA insert library from the D genome of wheat. Theor. Appl. Genet. 1999; 99, 305-13.

SD Nilmalgoda, S Cloutier and AZ Walichnowski. Construction and characterization of a bacterial artificial chromosome (BAC) library of hexaploid wheat (Triticum aestivum L.) and validation of genome coverage using locus-specific primers. Genome 2003; 46, 870-8.

J Song, F Dong, JW Lilly, RM Stupar and J Jiang. Instability of bacterial artificial chromosome (BAC) clones containing tandemly repeated DNA sequences. Genome 2001; 44, 463-9.


Refbacks

  • There are currently no refbacks.




http://wjst.wu.ac.th/public/site/images/admin/image012_400

Online ISSN: 2228-835X

http://wjst.wu.ac.th

Last updated: 12 August 2019