Nitrogen-fixing actinobacteria of the genus Frankia are symbionts of woody dicotyledonous plants termed actinorhizal plants. We report here a 5.3-Mbp draft genome sequence for Frankia sp. stain Thr, a nitrogen-fixing actinobacterium isolated from root nodules of Casuarina cunninghamiana collected in Egypt

Abebe-Akele, Feseha

Ghodhbane-Gtari, Faten

Gtari, Maher

Hurst, Sheldon G., IV

Ktari, Amir

Mansour, Samira R.

Morris, Krystalynne

Oshone, Rediet

Salem, Karima

Thomas, W. Kelley

Tisa, Louis S.

Genome Announcements

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PubMed

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University of New HampshireUniversity of New Hampshire Scholars' RepositoryMolecular, Cellular and Biomedical SciencesScholarship Molecular, Cellular and Biomedical Sciences5-22-2014Draft Genome Sequence of Frankia sp. Strain Thr, aNitrogen-Fixing Actinobacterium Isolated from theRoot Nodules of Casuarina cunninghamianaGrown in EgyptSheldon G. Hurst IVUniversity of New Hampshire, DurhamRediet OshoneUniversity of New Hampshire, DurhamFaten Ghodhbane-GtariUniversité de Tunis El-ManarKrystalynne MorrisUniversity of New Hampshire, DurhamFeseha Abebe-AkeleUniversity of New Hampshire, DurhamSee next page for additional authorsFollow this and additional works at: https://scholars.unh.edu/mcbs_facpubThis Article is brought to you for free and open access by the Molecular, Cellular and Biomedical Sciences at University of New Hampshire Scholars'Repository. It has been accepted for inclusion in Molecular, Cellular and Biomedical Sciences Scholarship by an authorized administrator of Universityof New Hampshire Scholars' Repository. For more information, please contact nicole.hentz@unh.edu.Recommended CitationHurst IV, S. G., F. Ghodhbane-Gtari, R. Oshone , K. Morris, F. Abebe-Akele, W. K. Thomas, A. Ktari, K. Salem, S. Mansour, M. Gtari,and L. S. Tisa. 2014. Draft Genome Sequence of Frankia sp. strain Thr, a Nitrogen-Fixing Actinobacterium Isolated from the RootNodules of Casuarina cunninghamiana Grown in Egypt. Genome Announc 2 (3):e00493-14. doi:10.1128/genomeA.00493-14.AuthorsSheldon G. Hurst IV, Rediet Oshone, Faten Ghodhbane-Gtari, Krystalynne Morris, Feseha Abebe-Akele, W.Kelley Thomas, Amir Ktari, Karima Salem, Samira R. Mansour, Maher Gtari, and Louis S. TisaThis article is available at University of New Hampshire Scholars' Repository: https://scholars.unh.edu/mcbs_facpub/158Draft Genome Sequence of Frankia sp. Strain Thr, a Nitrogen-FixingActinobacterium Isolated from the Root Nodules of Casuarinacunninghamiana Grown in EgyptSheldon G. Hurst IV,a Rediet Oshone,a Faten Ghodhbane-Gtari,a,b Krystalynne Morris,a Feseha Abebe-Akele,a W. Kelley Thomas,aAmir Ktari,b Karima Salem,b Samira Mansour,c Maher Gtari,a,b Louis S. TisaaUniversity of New Hampshire, Durham, New Hampshire, USAa; Laboratoire Microorganismes et Biomolécules Actives, Université Tunis El Manar (FST) & UniversitéCarthage (INSAT), Campus Universitaire, Tunis, Tunisiab; Botany Department, Faculty of Science, Suez Canal University, Ismailia, EgyptcNitrogen-fixing actinobacteria of the genus Frankia are symbionts of woody dicotyledonous plants termed actinorhizal plants.We report here a 5.3-Mbp draft genome sequence for Frankia sp. stain Thr, a nitrogen-fixing actinobacterium isolated from rootnodules of Casuarina cunninghamiana collected in Egypt.Received 2 May 2014 Accepted 6 May 2014 Published 22 May 2014Citation Hurst SG IV, Oshone R, Ghodhbane-Gtari F, Morris K, Abebe-Akele F, Thomas WK, Ktari A, Salem K, Mansour S, Gtari M, Tisa LS. 2014. Draft genome sequence of Frankiasp. strain Thr, a nitrogen-fixing actinobacterium isolated from the root nodules of Casuarina cunninghamiana grown in Egypt. Genome Announc. 2(3):e00493-14. doi:10.1128/genomeA.00493-14.Copyright © 2014 Hurst et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 3.0 Unported license.Address correspondence to Louis S. Tisa, louis.tisa@unh.edu.Among the Actinobacteria, the genus Frankia is well known forits facultative lifestyle as a plant symbiont of dicotyledonousplants, termed actinorhizal plants, and as a free-living soil dweller(1-3). Actinorhizal plants are ecologically important pioneercommunity plants that are found worldwide under a broad rangeof ecological and environmental conditions (4). The symbiosisallows actinorhizal plants to colonize harsh environmental ter-rains. Based on molecular phylogenetic analysis, four major clus-ters within the genus are recognized (5-9), and genomes for rep-resentatives from each cluster have been sequenced (10-16).Cluster I contains two subclusters: one subcluster (cluster Ia) rep-resents Frankia strains with the ability to infect a wide range ofhost plants, including members of the Betulaceae and Myricaceaefamilies, and the other subcluster (cluster Ib) contains strains lim-ited to Casuarina and Allocasuarina host plants.The fast growing and highly tolerant trees from the family Ca-suarinaceae have been used worldwide as windbreaks, dune stabi-lizers, fuel wood, and in soil regeneration (17). In North Africa,these actinorhizal plants are growwell under the harsh conditions.Frankia sp. strain Thrwas isolated from root nodules ofCasuarinacunninghamiana growing in Egypt and effectively reinfects itsoriginal host plant, one of the Casuarina spp. (18). Frankia sp.strain Thr has been used extensively in infection studies and is wellcharacterized for its host plant interactions. Presently, two ge-nomes from Frankia cluster Ib Casuarina-infecting strains areavailable (10, 16). Frankia sp. strain Thrwas sequenced to increaseour understanding of this subcluster Ib with restricted host plantrange and to provide information about its potential ecologicalroles and interaction with actinorhizal plants.The draft genome of Frankia sp. strain Thrwas generated at theHubbard Genome Center (University of New Hampshire, Dur-ham, NH) using Illumina technology (19) techniques. A standardIllumina shotgun librarywas constructed and sequenced using theIllumina HiSeq 2000 platform, which generated 19,189,718 reads(260-bp insert size) totaling 1,824.9 Mbp. The Illumina sequencedata were assembled using the CLCGenomicsWorkbench (6.5.1)and AllPaths-LG (version r41043) (20). The final draft assemblycontained 171 contigs, with anN50 of 71.6 kb. The total size of thegenome is 5.3Mbp, and the final assembly is based on 1,666.1Mbof Illumina draft data, providing an average 248 coverage of thegenome.The high-quality draft genome of Frankia sp. strain Thr wasresolved to 171 contigs consisting of 5,309,833 bp, with a GCcontent of 69.95%. The assembled Frankia sp. strain Thr genomewas annotated via the IntegratedMicrobial Genomes (IMG) plat-formdeveloped by the JointGenome Institute,WalnutCreek, CA,USA (21), and resulted in 4,805 candidate protein-coding genes,46 tRNA genes, and 2 rRNA regions.Nucleotide sequence accessionnumbers.Thiswhole-genomeshotgun project has been deposited at DDBJ/EMBL/GenBank un-der the accession no. JENI00000000. The version described in thispaper is version JENI01000000.ACKNOWLEDGMENTSThis work was supported in part by the New Hampshire AgriculturalExperimental Station (Hatch NH585), U.S.-Egypt Joint research grantBIO13-001, Agriculture and Food Research Initiative grant 2010-65108-20581 from theUSDANational Institute of Food andAgriculture, and theCollege of Life Science and Agriculture at the University of NewHampshire-Durham. This is scientific contribution number 2557 fromthe NH Agricultural Experiment Station. M.G. and F.G.-G. were sup-ported in part by a Visiting Scientist and Postdoctoral Scientist Programadministered by theNewHampshire Agricultural Experimental Station atthe University of New Hampshire.REFERENCES1. Benson DR, Silvester WB. 1993. Biology of Frankia strains, actinomycetesymbionts of actinorhizal plants. Microbiol. Rev. 57:293–319.2. Schwencke J, Caru M. 2001. 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Draft Genome Sequence of Frankia sp. Strain Thr, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina cunninghamiana Grown in Egypt

ABSTRACT
          
            Nitrogen-fixing actinobacteria of the genus
            Frankia
            are symbionts of woody dicotyledonous plants termed actinorhizal plants. We report here a 5.3-Mbp draft genome sequence for
            Frankia
            sp. stain Thr, a nitrogen-fixing actinobacterium isolated from root nodules of
            Casuarina cunninghamiana
            collected in Egypt.
          </jats:p

Sheldon G. Hurst

Rediet Oshone

Faten Ghodhbane-Gtari

Krystalynne Morris

Feseha Abebe-Akele

W. Kelley Thomas

Amir Ktari

Karima Salem

Samira Mansour

Maher Gtari

Louis S. Tisa

Crossref

Draft Genome Sequence of
            <i>Frankia</i>
            sp. Strain Thr, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of
            <i>Casuarina cunninghamiana</i>
            Grown in Egypt

https://scholars.unh.edu/cgi/viewcontent.cgi?article=1159&context=mcbs_facpub

Draft Genome Sequence of Frankia sp. Strain Thr, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina cunninghamiana Grown in Egypt

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