Literature DB >> 22343430

Construction of BIBAC and BAC libraries from a variety of organisms for advanced genomics research.

Hong-Bin Zhang1, Chantel F Scheuring, Meiping Zhang, Yang Zhang, Cheng-Cang Wu, Jennifer J Dong, Yaning Li.   

Abstract

Large-insert BAC (bacterial artificial chromosome) and BIBAC (binary BAC) libraries are essential for modern genomics research for all organisms. We helped pioneer the BAC and BIBAC technologies, and by using them we have constructed hundreds of BAC and BIBAC libraries for different species of plants, animals, marine animals, insects, algae and microbes. These libraries have been used globally for different aspects of genomics research. Here we describe the procedure with the latest improvements that we have made and used for construction of BIBAC libraries. The procedure includes the preparation of BIBAC vectors, the preparation of clonable fragments of the desired size from the source DNA, the construction and transformation of BIBACs and, finally, the characterization and assembly of BIBAC libraries. We also specify the modifications necessary for construction of BAC libraries using the protocol. The entire protocol takes ∼7 d.

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Year:  2012        PMID: 22343430     DOI: 10.1038/nprot.2011.456

Source DB:  PubMed          Journal:  Nat Protoc        ISSN: 1750-2799            Impact factor:   13.491


  52 in total

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Journal:  Gene       Date:  2002-01-09       Impact factor: 3.688

2.  Bacterial artificial chromosome-based physical map of the rice genome constructed by restriction fingerprint analysis.

Authors:  Q Tao; Y L Chang; J Wang; H Chen; M N Islam-Faridi; C Scheuring; B Wang; D M Stelly; H B Zhang
Journal:  Genetics       Date:  2001-08       Impact factor: 4.562

3.  Cloning and stable maintenance of 300-kilobase-pair fragments of human DNA in Escherichia coli using an F-factor-based vector.

Authors:  H Shizuya; B Birren; U J Kim; V Mancino; T Slepak; Y Tachiiri; M Simon
Journal:  Proc Natl Acad Sci U S A       Date:  1992-09-15       Impact factor: 11.205

4.  Construction and characterization of two bacterial artificial chromosome libraries of Zhikong scallop, Chlamys farreri Jones et Preston, and identification of BAC clones containing the genes involved in its innate immune system.

Authors:  Yang Zhang; Xiaojun Zhang; Chantel F Scheuring; Hong-Bin Zhang; Pin Huan; Fuhua Li; Jianhai Xiang
Journal:  Mar Biotechnol (NY)       Date:  2008-02-19       Impact factor: 3.619

5.  Construction and characterization of a human bacterial artificial chromosome library.

Authors:  U J Kim; B W Birren; T Slepak; V Mancino; C Boysen; H L Kang; M I Simon; H Shizuya
Journal:  Genomics       Date:  1996-06-01       Impact factor: 5.736

6.  A physical map of the chicken genome.

Authors:  John W Wallis; Jan Aerts; Martien A M Groenen; Richard P M A Crooijmans; Dan Layman; Tina A Graves; Debra E Scheer; Colin Kremitzki; Mary J Fedele; Nancy K Mudd; Marco Cardenas; Jamey Higginbotham; Jason Carter; Rebecca McGrane; Tony Gaige; Kelly Mead; Jason Walker; Derek Albracht; Jonathan Davito; Shiaw-Pyng Yang; Shin Leong; Asif Chinwalla; Mandeep Sekhon; Kristine Wylie; Jerry Dodgson; Michael N Romanov; Hans Cheng; Pieter J de Jong; Kazutoyo Osoegawa; Mikhail Nefedov; Hongbin Zhang; John D McPherson; Martin Krzywinski; Jacquie Schein; Ladeana Hillier; Elaine R Mardis; Richard K Wilson; Wesley C Warren
Journal:  Nature       Date:  2004-12-09       Impact factor: 49.962

7.  A binary-BAC system for plant transformation with high-molecular-weight DNA.

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Journal:  Gene       Date:  1997-10-24       Impact factor: 3.688

8.  Complementation of plant mutants with large genomic DNA fragments by a transformation-competent artificial chromosome vector accelerates positional cloning.

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9.  An integrated BAC and genome sequence physical map of Phytophthora sojae.

Authors:  Xuemin Zhang; Chantel Scheuring; Sucheta Tripathy; Zhanyou Xu; Chengcang Wu; Angela Ko; S Ken Tian; Felipe Arredondo; Mi-Kyung Lee; Felipe A Santos; Rays H Y Jiang; Hong-Bin Zhang; Brett M Tyler
Journal:  Mol Plant Microbe Interact       Date:  2006-12       Impact factor: 4.171

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Authors:  Brett M Tyler; Sucheta Tripathy; Xuemin Zhang; Paramvir Dehal; Rays H Y Jiang; Andrea Aerts; Felipe D Arredondo; Laura Baxter; Douda Bensasson; Jim L Beynon; Jarrod Chapman; Cynthia M B Damasceno; Anne E Dorrance; Daolong Dou; Allan W Dickerman; Inna L Dubchak; Matteo Garbelotto; Mark Gijzen; Stuart G Gordon; Francine Govers; Niklaus J Grunwald; Wayne Huang; Kelly L Ivors; Richard W Jones; Sophien Kamoun; Konstantinos Krampis; Kurt H Lamour; Mi-Kyung Lee; W Hayes McDonald; Mónica Medina; Harold J G Meijer; Eric K Nordberg; Donald J Maclean; Manuel D Ospina-Giraldo; Paul F Morris; Vipaporn Phuntumart; Nicholas H Putnam; Sam Rash; Jocelyn K C Rose; Yasuko Sakihama; Asaf A Salamov; Alon Savidor; Chantel F Scheuring; Brian M Smith; Bruno W S Sobral; Astrid Terry; Trudy A Torto-Alalibo; Joe Win; Zhanyou Xu; Hongbin Zhang; Igor V Grigoriev; Daniel S Rokhsar; Jeffrey L Boore
Journal:  Science       Date:  2006-09-01       Impact factor: 47.728

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  11 in total

1.  Preparation of megabase-sized DNA from a variety of organisms using the nuclei method for advanced genomics research.

Authors:  Meiping Zhang; Yang Zhang; Chantel F Scheuring; Cheng-Cang Wu; Jennifer J Dong; Hong-Bin Zhang
Journal:  Nat Protoc       Date:  2012-02-16       Impact factor: 13.491

2.  Targeted isolation and cloning of 100-kb microbial genomic sequences by Cas9-assisted targeting of chromosome segments.

Authors:  Wenjun Jiang; Ting F Zhu
Journal:  Nat Protoc       Date:  2016-04-21       Impact factor: 13.491

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Journal:  PLoS One       Date:  2014-05-22       Impact factor: 3.240

6.  MISSA 2.0: an updated synthetic biology toolbox for assembly of orthogonal CRISPR/Cas systems.

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7.  Oak genome reveals facets of long lifespan.

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Journal:  Nat Plants       Date:  2018-06-18       Impact factor: 15.793

8.  An assessment of transgenomics as a tool for gene discovery in Populus euphratica Oliv.

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Journal:  Plant Mol Biol       Date:  2018-07-26       Impact factor: 4.076

9.  Construction of a plant-transformation-competent BIBAC library and genome sequence analysis of polyploid Upland cotton (Gossypium hirsutum L.).

Authors:  Mi-Kyung Lee; Yang Zhang; Meiping Zhang; Mark Goebel; Hee Jin Kim; Barbara A Triplett; David M Stelly; Hong-Bin Zhang
Journal:  BMC Genomics       Date:  2013-03-28       Impact factor: 3.969

10.  Cas9-Assisted Targeting of CHromosome segments CATCH enables one-step targeted cloning of large gene clusters.

Authors:  Wenjun Jiang; Xuejin Zhao; Tslil Gabrieli; Chunbo Lou; Yuval Ebenstein; Ting F Zhu
Journal:  Nat Commun       Date:  2015-09-01       Impact factor: 14.919

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