eHALOPH - Halophytes Database

Publication Type	J
Authors	Dassanayake, M; Haas, JS; Bohnert, HJ; Cheeseman, JM
Author Full Name	Dassanayake, Maheshi; Haas, Jeff S.; Bohnert, Hans J.; Cheeseman, John M.
Title	Comparative transcriptomics for mangrove species: an expanding resource
Source	FUNCTIONAL & INTEGRATIVE GENOMICS
Language	English
Document Type	Article
Author Keywords	Mangroves; Transcriptome; Database; Extremophile; miRNA target sequences; Small RNA
Keywords Plus	RHIZOPHORA-MANGLE; REGULATED MICRORNAS; STRESS RESPONSES; NONCODING RNAS; PLANTS; ARABIDOPSIS; DWARF; IDENTIFICATION; CONSERVATION; BIOGENESIS
Abstract	We present here the Mangrove Transcriptome Database (MTDB), an integrated, web-based platform providing transcript information from all 28 mangrove species for which information is available. Sequences are annotated, and when possible, GO clustered and assigned to KEGG pathways, making MTDB a valuable resource for approaching mangrove or other extremophile biology from the transcriptomic level. As one example outlining the potential of MTDB, we highlight the analysis of mangrove microRNA (miRNA) precursor sequences, miRNA target sites, and their conservation and divergence compared with model plants. MTDB is available at http://mangrove.illinois.edu.
Author Address	[Dassanayake, Maheshi; Bohnert, Hans J.; Cheeseman, John M.] Univ Illinois, Dept Plant Biol, Urbana, IL 61801 USA; [Haas, Jeff S.] Univ Illinois, Sch Integrat Biol, ONIT, Urbana, IL 61801 USA
Reprint Address	Cheeseman, JM (reprint author), Univ Illinois, Dept Plant Biol, 505 S Goodwin Ave, Urbana, IL 61801 USA.
E-mail Address	j-cheese@illinois.edu
ResearcherID Number	Bohnert, Hans/A-7104-2009; Dassanayake, Maheshi/B-7331-2012
ORCID Number	Dassanayake, Maheshi/0000-0003-3123-3731
Funding Agency and Grant Number	University of Illinois at Urbana-Champaign; Hunterdon Oceanographic Research Endowment
Funding Text	The authors are indebted to the Smithsonian Caribbean Coral Reef Ecosystem (CCRE) project, and especially to Klaus Rutzler, Candy Feller, Mike Carpenter and all the Carrie Bow Cay station managers for continued support for the field work and access to Twin Cays; to the Vice Chancellor for Research at the University of Illinois at Urbana-Champaign for funding the sequencing; to Shahjahan Ali, Jyothi Thimmapuram and Deepika Vulaganthi in the Keck Center for Comparative and Functional Genomics at UIUC for sequencing and assembly; and to Robert Bocchino and Sahan Dissanayake for help with Pen l scripts. This is contribution number 870 of the CCRE program, Smithsonian Institution, supported in part by the Hunterdon Oceanographic Research Endowment.
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Cited Reference Count	43
Times Cited	9
Total Times Cited Count (WoS, BCI, and CSCD)	9
Publisher	SPRINGER HEIDELBERG
Publisher City	HEIDELBERG
Publisher Address	TIERGARTENSTRASSE 17, D-69121 HEIDELBERG, GERMANY
ISSN	1438-793X
29-Character Source Abbreviation	FUNCT INTEGR GENOMIC
ISO Source Abbreviation	Funct. Integr. Genomics
Publication Date	NOV
Year Published	2010
Volume	10
Issue	4
Beginning Page	523
Ending Page	532
Digital Object Identifier (DOI)	10.1007/s10142-009-0156-5
Page Count	10
Web of Science Category	Genetics & Heredity
Subject Category	Genetics & Heredity
Document Delivery Number	680SN
Unique Article Identifier	WOS:000284254800007
Plants associated with this reference	Heritiera littoralis Rhizophora mangle