Construction and Characterization of a Common Bean Bacterial Artificial Chromosome Library

Overview

Journal Plant Mol Biol

Date 1999 Oct 20

PMID 10527422

Citations 12

Authors

W Vanhouten

S Mackenzie

Affiliations

Soon will be listed here.

Abstract

We have constructed a common bean (Phaseolus vulgaris L.) bacterial artificial chromosome (BAC) library consisting of 33,792 clones and an estimated 3- to 5-fold coverage of the common bean genome. Leaf nuclei were used as the source for high-molecular-weight DNA, and an endonuclease/methylase competition assay was employed to partially cleave the DNA. The library was screened with a number of nuclear and mitochondrial probes. Each nuclear probe identified at least two BACs with an average insert size of ca. 100 kb. Only 26 clones were identified after hybridizing with mitochondrial probes, indicating contamination with organellar sequences is low. Numerous clones could be identified after screening the library with two repetitive probes flanking the nuclear fertility restorer Fr. Intriguingly, 12 clones appeared to hybridize to both markers, and restriction analysis of these clones revealed that they can be assembled into maximally four contigs, suggesting that these repetitive probes may be useful for the physical mapping of the Fr locus.

Citing Articles

The Co-4 locus on chromosome Pv08 contains a unique cluster of 18 COK-4 genes and is regulated by immune response in common bean.

Oblessuc P, Francisco C, Melotto M Theor Appl Genet. 2015; 128(6):1193-208.

PMID: 25805316 DOI: 10.1007/s00122-015-2500-6.

Bacterial artificial chromosome libraries of pulse crops: characteristics and applications.

Yu K J Biomed Biotechnol. 2011; 2012:493186.

PMID: 21811383 PMC: 3144660. DOI: 10.1155/2012/493186.

Cytogenetic map of common bean (Phaseolus vulgaris L.).

Fonseca A, Ferreira J, dos Santos T, Mosiolek M, Bellucci E, Kami J Chromosome Res. 2010; 18(4):487-502.

PMID: 20449646 PMC: 2886897. DOI: 10.1007/s10577-010-9129-8.

Construction of a BAC library and a physical map of a major QTL for CBB resistance of common bean (Phaseolus vulgaris L.).

Liu S, Yu K, Huffner M, Park S, Banik M, Pauls K Genetica. 2010; 138(7):709-16.

PMID: 20419470 DOI: 10.1007/s10709-010-9450-3.

BAC libraries construction from the ancestral diploid genomes of the allotetraploid cultivated peanut.

Guimaraes P, Garsmeur O, Proite K, Leal-Bertioli S, Seijo G, Chaine C BMC Plant Biol. 2008; 8:14.

PMID: 18230166 PMC: 2254395. DOI: 10.1186/1471-2229-8-14.

References

Bonnema G, Hontelez J, Verkerk R, Zhang Y, van Daelen R, van Kammen A . An improved method of partially digesting plant megabase DNA suitable for YAC cloning: application to the construction of a 5.5 genome equivalent YAC library of tomato. Plant J. 1996; 9(1):125-33. DOI: 10.1046/j.1365-313x.1996.09010125.x. View

Tague B, Dickinson C, Chrispeels M . A short domain of the plant vacuolar protein phytohemagglutinin targets invertase to the yeast vacuole. Plant Cell. 1990; 2(6):533-46. PMC: 159909. DOI: 10.1105/tpc.2.6.533. View

Shizuya H, Birren B, Kim U, Mancino V, Slepak T, Tachiiri Y . 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 U S A. 1992; 89(18):8794-7. PMC: 50007. DOI: 10.1073/pnas.89.18.8794. View

Yu L, Lamb C, Dixon R . Purification and biochemical characterization of proteins which bind to the H-box cis-element implicated in transcriptional activation of plant defense genes. Plant J. 1993; 3(6):805-16. DOI: 10.1111/j.1365-313x.1993.00805.x. View

Buschges R, Hollricher K, Panstruga R, Simons G, Wolter M, Frijters A . The barley Mlo gene: a novel control element of plant pathogen resistance. Cell. 1997; 88(5):695-705. DOI: 10.1016/s0092-8674(00)81912-1. View

Larin Z, Monaco A, Lehrach H . Yeast artificial chromosome libraries containing large inserts from mouse and human DNA. Proc Natl Acad Sci U S A. 1991; 88(10):4123-7. PMC: 51610. DOI: 10.1073/pnas.88.10.4123. View

Sanchez F . Characterization of the common bean uricase II and its expression in organs other than nodules. Plant Physiol. 1997; 115(4):1307-17. PMC: 158596. DOI: 10.1104/pp.115.4.1307. View

Cui X, Wise R, Schnable P . The rf2 nuclear restorer gene of male-sterile T-cytoplasm maize. Science. 1996; 272(5266):1334-6. DOI: 10.1126/science.272.5266.1334. View

Martin G, Ganal M, Tanksley S . Construction of a yeast artificial chromosome library of tomato and identification of cloned segments linked to two disease resistance loci. Mol Gen Genet. 1992; 233(1-2):25-32. DOI: 10.1007/BF00587557. View

10.

Janska H, Mackenzie S . Unusual mitochondrial genome organization in cytoplasmic male sterile common bean and the nature of cytoplasmic reversion to fertility. Genetics. 1993; 135(3):869-79. PMC: 1205726. DOI: 10.1093/genetics/135.3.869. View

11.

Haley S, Miklas P, Stavely J, Byrum J, Kelly J . Identification of RAPD markers linked to a major rust resistance gene block in common bean. Theor Appl Genet. 2013; 86(4):505-12. DOI: 10.1007/BF00838567. View

12.

Feinberg A, Vogelstein B . A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity. Anal Biochem. 1983; 132(1):6-13. DOI: 10.1016/0003-2697(83)90418-9. View

13.

Mackenzie S, Bassett M . Genetics of fertility restoration in cytoplasmic male sterile Phaseolus vulgaris L. : 1. Cytoplasmic alteration by a nuclear restorer gene. Theor Appl Genet. 2013; 74(5):642-5. DOI: 10.1007/BF00288864. View

14.

Boutin S, Young N, Olson T, Yu Z, Vallejos C, Shoemaker R . Genome conservation among three legume genera detected with DNA markers. Genome. 1995; 38(5):928-37. DOI: 10.1139/g95-122. View

15.

Menancio-Hautea D, Fatokun C, Kumar L, Danesh D, Young N . Comparative genome analysis of mungbean (Vigna radiata L. Wilczek) and cowpea (V. unguiculata L. Walpers) using RFLP mapping data. Theor Appl Genet. 2013; 86(7):797-810. DOI: 10.1007/BF00212605. View

16.

Sheng Y, Mancino V, Birren B . Transformation of Escherichia coli with large DNA molecules by electroporation. Nucleic Acids Res. 1995; 23(11):1990-6. PMC: 306974. DOI: 10.1093/nar/23.11.1990. View

17.

Mackenzie S . Identification of a sterility-inducing cytoplasm in a fertile accession line of Phaseolus vulgaris L. Genetics. 1991; 127(2):411-6. PMC: 1204368. DOI: 10.1093/genetics/127.2.411. View

18.

Martin G, Brommonschenkel S, Chunwongse J, Frary A, Ganal M, Spivey R . Map-based cloning of a protein kinase gene conferring disease resistance in tomato. Science. 1993; 262(5138):1432-6. DOI: 10.1126/science.7902614. View

19.

Woo S, Jiang J, Gill B, Paterson A, Wing R . Construction and characterization of a bacterial artificial chromosome library of Sorghum bicolor. Nucleic Acids Res. 1994; 22(23):4922-31. PMC: 523757. DOI: 10.1093/nar/22.23.4922. View

20.

He S, Lyznik A, Mackenzie S . Pollen fertility restoration by nuclear gene Fr in CMS bean: nuclear-directed alteration of a mitochondrial population. Genetics. 1995; 139(2):955-62. PMC: 1206393. DOI: 10.1093/genetics/139.2.955. View