Construction of a bacterial artificial chromosome library from the spikemoss Selaginella moellendorffii:: a new resource for plant comparative genomics

被引:52
作者
Wang, Wenming
Tanurdzic, Milos
Luo, Meizhong
Sisneros, Nicholas
Kim, Hye Ran
Weng, Jing-Ke
Kudrna, Dave
Mueller, Christopher
Arumuganathan, K.
Carlson, John
Chapple, Clint
de Pamphilis, Claude
Mandoli, Dina
Tomkins, Jeff
Wing, Rod A.
Banks, Jo Ann [1 ]
机构
[1] Purdue Univ, Dept Bot & Plant Pathol, W Lafayette, IN 47907 USA
[2] Univ Arizona, Dept Plant Sci, Arizona Genom Inst, Tucson, AZ 85721 USA
[3] Purdue Univ, Dept Biochem, W Lafayette, IN 47907 USA
[4] Benaroya Res Inst Virginia Mason, Seattle, WA 98101 USA
[5] Penn State Univ, Dept Biol, University Pk, PA 16802 USA
[6] Penn State Univ, Huck Inst Life Sci, University Pk, PA 16802 USA
[7] Univ Washington, Dept Biol, Seattle, WA 98195 USA
[8] Univ Washington, Ctr Dev Biol, Seattle, WA 98195 USA
[9] Clemson Univ, Dept Genet Biochem & Life Sci Studies, Clemson, SC 29634 USA
[10] Cold Spring Harbor Lab, Cold Spring Harbor, NY 11724 USA
[11] Univ Maryland, Inst Biotechnol, Ctr Biosyst Res, College Pk, MD 20742 USA
基金
美国国家科学基金会;
关键词
D O I
10.1186/1471-2229-5-10
中图分类号
Q94 [植物学];
学科分类号
071001 ;
摘要
Background: The lycophytes are an ancient lineage of vascular plants that diverged from the seed plant lineage about 400 Myr ago. Although the lycophytes occupy an important phylogenetic position for understanding the evolution of plants and their genomes, no genomic resources exist for this group of plants. Results: Here we describe the construction of a large-insert bacterial artificial chromosome ( BAC) library from the lycophyte Selaginella moellendorffii. Based on cell flow cytometry, this species has the smallest genome size among the different lycophytes tested, including Huperzia lucidula, Diphaiastrum digita, Isoetes engelmanii and S. kraussiana. The arrayed BAC library consists of 9126 clones; the average insert size is estimated to be 122 kb. Inserts of chloroplast origin account for 2.3% of the clones. The BAC library contains an estimated ten genome-equivalents based on DNA hybridizations using five single-copy and two duplicated S. moellendorffii genes as probes. Conclusion: The S. moellenforffii BAC library, the first to be constructed from a lycophyte, will be useful to the scientific community as a resource for comparative plant genomics and evolution.
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页数:8
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共 20 条
[1]   BASIC LOCAL ALIGNMENT SEARCH TOOL [J].
ALTSCHUL, SF ;
GISH, W ;
MILLER, W ;
MYERS, EW ;
LIPMAN, DJ .
JOURNAL OF MOLECULAR BIOLOGY, 1990, 215 (03) :403-410
[2]   Analysis of the genome sequence of the flowering plant Arabidopsis thaliana [J].
Kaul, S ;
Koo, HL ;
Jenkins, J ;
Rizzo, M ;
Rooney, T ;
Tallon, LJ ;
Feldblyum, T ;
Nierman, W ;
Benito, MI ;
Lin, XY ;
Town, CD ;
Venter, JC ;
Fraser, CM ;
Tabata, S ;
Nakamura, Y ;
Kaneko, T ;
Sato, S ;
Asamizu, E ;
Kato, T ;
Kotani, H ;
Sasamoto, S ;
Ecker, JR ;
Theologis, A ;
Federspiel, NA ;
Palm, CJ ;
Osborne, BI ;
Shinn, P ;
Conway, AB ;
Vysotskaia, VS ;
Dewar, K ;
Conn, L ;
Lenz, CA ;
Kim, CJ ;
Hansen, NF ;
Liu, SX ;
Buehler, E ;
Altafi, H ;
Sakano, H ;
Dunn, P ;
Lam, B ;
Pham, PK ;
Chao, Q ;
Nguyen, M ;
Yu, GX ;
Chen, HM ;
Southwick, A ;
Lee, JM ;
Miranda, M ;
Toriumi, MJ ;
Davis, RW .
NATURE, 2000, 408 (6814) :796-815
[3]  
Arumuganathan K., 1991, PLANT MOL BIOL REP, V9, P229, DOI DOI 10.1007/BF02672073
[4]   NUCLEAR-DNA AMOUNTS IN ANGIOSPERMS [J].
BENNETT, MD ;
SMITH, JB .
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 1991, 334 (1271) :309-345
[5]   Comparisons with Caenorhabditis (∼100 Mb) and Drosophila (∼175 Mb) using flow cytometry show genome size in Arabidopsis to be ∼157 Mb and thus ∼25 % larger than the Arabidopsis genome initiative estimate of ∼125 Mb [J].
Bennett, MD ;
Leitch, IJ ;
Price, HJ ;
Johnston, JS .
ANNALS OF BOTANY, 2003, 91 (05) :547-557
[6]   Nuclear DNA amounts in angiosperms - 583 new estimates [J].
Bennett, MD ;
Leitch, IJ .
ANNALS OF BOTANY, 1997, 80 (02) :169-196
[7]   RAPID FLOW CYTOMETRIC ANALYSIS OF THE CELL-CYCLE IN INTACT PLANT-TISSUES [J].
GALBRAITH, DW ;
HARKINS, KR ;
MADDOX, JM ;
AYRES, NM ;
SHARMA, DP ;
FIROOZABADY, E .
SCIENCE, 1983, 220 (4601) :1049-1051
[8]   A draft sequence of the rice genome (Oryza sativa L. ssp japonica) [J].
Goff, SA ;
Ricke, D ;
Lan, TH ;
Presting, G ;
Wang, RL ;
Dunn, M ;
Glazebrook, J ;
Sessions, A ;
Oeller, P ;
Varma, H ;
Hadley, D ;
Hutchinson, D ;
Martin, C ;
Katagiri, F ;
Lange, BM ;
Moughamer, T ;
Xia, Y ;
Budworth, P ;
Zhong, JP ;
Miguel, T ;
Paszkowski, U ;
Zhang, SP ;
Colbert, M ;
Sun, WL ;
Chen, LL ;
Cooper, B ;
Park, S ;
Wood, TC ;
Mao, L ;
Quail, P ;
Wing, R ;
Dean, R ;
Yu, YS ;
Zharkikh, A ;
Shen, R ;
Sahasrabudhe, S ;
Thomas, A ;
Cannings, R ;
Gutin, A ;
Pruss, D ;
Reid, J ;
Tavtigian, S ;
Mitchell, J ;
Eldredge, G ;
Scholl, T ;
Miller, RM ;
Bhatnagar, S ;
Adey, N ;
Rubano, T ;
Tusneem, N .
SCIENCE, 2002, 296 (5565) :92-100
[9]   The origin and early evolution of plants on land [J].
Kenrick, P ;
Crane, PR .
NATURE, 1997, 389 (6646) :33-39
[10]   Construction of a BAC library of Physcomitrella patens and isolation of a LEA gene [J].
Liang, CY ;
Xi, Y ;
Shu, J ;
Li, J ;
Yang, JL ;
Che, KP ;
Jin, DM ;
Liu, XL ;
Weng, ML ;
He, YK ;
Wang, B .
PLANT SCIENCE, 2004, 167 (03) :491-498