{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,11]],"date-time":"2026-03-11T01:44:54Z","timestamp":1773193494674,"version":"3.50.1"},"reference-count":36,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2018,7,27]],"date-time":"2018-07-27T00:00:00Z","timestamp":1532649600000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"FCT \u2013 Foundation for Science and Technology","award":["SFRH\/BD\/84541\/2012"],"award-info":[{"award-number":["SFRH\/BD\/84541\/2012"]}]},{"name":"FCT \u2013 Foundation for Science and Technology","award":["UID\/AGR\/00115\/2013"],"award-info":[{"award-number":["UID\/AGR\/00115\/2013"]}]},{"DOI":"10.13039\/501100000268","name":"Biotechnology and Biological Sciences Research Council","doi-asserted-by":"crossref","award":["BB\/M014207\/1"],"award-info":[{"award-number":["BB\/M014207\/1"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Hatch Act and State of Iowa Funds"},{"name":"Hatch Act and State of Iowa funds"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Genomics"],"published-print":{"date-parts":[[2018,12]]},"DOI":"10.1186\/s12864-018-4908-2","type":"journal-article","created":{"date-parts":[[2018,7,26]],"date-time":"2018-07-26T23:34:24Z","timestamp":1532648064000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":35,"title":["STATAWAARS: a promoter motif associated with spatial expression in the major effector-producing tissues of the plant-parasitic nematode Bursaphelenchus xylophilus"],"prefix":"10.1186","volume":"19","author":[{"given":"Margarida","family":"Espada","sequence":"first","affiliation":[]},{"given":"Sebastian","family":"Eves-van den Akker","sequence":"additional","affiliation":[]},{"given":"Tom","family":"Maier","sequence":"additional","affiliation":[]},{"given":"Paramasivan","family":"Vijayapalani","sequence":"additional","affiliation":[]},{"given":"Thomas","family":"Baum","sequence":"additional","affiliation":[]},{"given":"Manuel","family":"Mota","sequence":"additional","affiliation":[]},{"given":"John T.","family":"Jones","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2018,7,27]]},"reference":[{"key":"4908_CR1","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1111\/j.1364-3703.2007.00461.x","volume":"9","author":"JT Jones","year":"2008","unstructured":"Jones JT, Li H, Moens M, Mota M, Kikuchi T. Bursaphelenchus xylophilus: opportunities in comparative genomics and molecular host-parasite interactions. Mol Plant Pathol. 2008;9:357\u201368.","journal-title":"Mol Plant Pathol"},{"issue":"1","key":"4908_CR2","doi-asserted-by":"publisher","first-page":"89","DOI":"10.1007\/s10658-011-9924-x","volume":"133","author":"C Vicente","year":"2012","unstructured":"Vicente C, Espada M, Vieira P, Mota M. Pine wilt disease: a threat to European forestry. Eur J Plant Pathol. 2012;133(1):89\u201399.","journal-title":"Eur J Plant Pathol"},{"key":"4908_CR3","first-page":"255","volume":"44","author":"Y Mamiya","year":"2012","unstructured":"Mamiya Y. Scanning electron microscopy of pine seedling wood tissues sections inoculated with the pinewood nematode, Burspahelenchus xylophilus, previously prepared for light microscopy. J Nematol. 2012;44:255\u20139.","journal-title":"J Nematol"},{"key":"4908_CR4","doi-asserted-by":"publisher","first-page":"19","DOI":"10.1016\/j.gene.2011.10.040","volume":"492","author":"A Haegeman","year":"2012","unstructured":"Haegeman A, Mantelin S, Jones JT, Gheysen G. Functional roles of effectors of plant-parasitic nematodes. Gene. 2012;492:19\u201331.","journal-title":"Gene"},{"key":"4908_CR5","doi-asserted-by":"publisher","first-page":"S71","DOI":"10.1017\/S0031182013002163","volume":"142","author":"MKD Bird","year":"2015","unstructured":"Bird MKD, Jones JT, Opperman CH, Kikuchi T, Danchin EGJ. Signatures of adaptation to plant parasitism in nematode genomes. Parasit. 2015;142:S71\u201384.","journal-title":"Parasit"},{"key":"4908_CR6","doi-asserted-by":"publisher","first-page":"201","DOI":"10.1016\/j.febslet.2004.07.039","volume":"572","author":"T Kikuchi","year":"2004","unstructured":"Kikuchi T, Jones JT, Aikawa T, Kosaka H, Ogura N. A family of GHF45 cellulases from the pine wood nematode Bursaphelenchus xylophilus. FEBS Lett. 2004;572:201\u20135.","journal-title":"FEBS Lett"},{"issue":"3","key":"4908_CR7","doi-asserted-by":"publisher","first-page":"280","DOI":"10.1094\/MPMI-19-0280","volume":"19","author":"T Kikuchi","year":"2006","unstructured":"Kikuchi T, Shibuya H, Aikawa T, Jones JT. Cloning and characterization of pectate lyases expressed in the esophageal gland of the pine wood nematode Bursaphelenchus xylophilus. Mol Plant-Microbe Interact. 2006;19(3):280\u20137.","journal-title":"Mol Plant-Microbe Interact"},{"key":"4908_CR8","doi-asserted-by":"publisher","first-page":"355","DOI":"10.1163\/156854109X446953","volume":"11","author":"T Kikuchi","year":"2009","unstructured":"Kikuchi T, Li H, karim N, Kennedy MW, Moens M, Jones JT. Identification of putative expansin-like genes from the pinewood nematode, Bursaphelenchus xylophilus, and evolution of the expansin gene family within Nematoda. Nematol. 2009;11:355\u201364.","journal-title":"Nematol"},{"key":"4908_CR9","doi-asserted-by":"publisher","first-page":"286","DOI":"10.1111\/mpp.12280","volume":"17","author":"M Espada","year":"2016","unstructured":"Espada M, Silva AC, Eves-van den Akker S, Cock PJA, Mota M, Jones JT. Identification and characterization of parasitism genes from the pinewood nematode Bursaphelenchus xylophilus reveals a multi-layered detoxification strategy. Mol Plant Pathol. 2016;17:286\u201395.","journal-title":"Mol Plant Pathol"},{"key":"4908_CR10","doi-asserted-by":"publisher","first-page":"720","DOI":"10.1094\/MPMI.2003.16.8.720","volume":"16","author":"B Gao","year":"2003","unstructured":"Gao B, Allen R, Maier T, Davis EL, Baum TJ, Hussey RS. The parasitome of the phytonematode Heterodera glycines. Mol Plant Microbe In. 2003;16:720\u20136.","journal-title":"Mol Plant Microbe In"},{"issue":"5","key":"4908_CR11","doi-asserted-by":"publisher","first-page":"376","DOI":"10.1094\/MPMI.2003.16.5.376","volume":"16","author":"G Huang","year":"2003","unstructured":"Huang G, Gao B, Maier T, Allen R, Davis EL, Baum TJ, Hussey RS. A profile of putative parasitism genes expressed in the esophageal gland cells of the root-knot nematode Meloidogyne incognita. Mol Plant-Microbe Interact. 2003;16(5):376\u201381.","journal-title":"Mol Plant-Microbe Interact"},{"key":"4908_CR12","doi-asserted-by":"publisher","first-page":"31","DOI":"10.1094\/MPMI-05-12-0121-FI","volume":"26","author":"TR Maier","year":"2013","unstructured":"Maier TR, Hewezi T, Peng JQ, Baum TJ. Isolation of whole esophageal gland cells from plant-parasitic nematodes for transcriptome analyses and effector identification. Mol Plant-Microbe Interact. 2013;26:31\u20135.","journal-title":"Mol Plant-Microbe Interact"},{"issue":"12","key":"4908_CR13","doi-asserted-by":"publisher","first-page":"2457","DOI":"10.1101\/gr.2961104","volume":"14","author":"D GuhaThakurta","year":"2004","unstructured":"GuhaThakurta D, Lawrence AS, Waterston RH, Stormo GD. Novel transcription regulatory elements in Caenorhabditis elegans. Genome Res. 2004;14(12):2457\u201368.","journal-title":"Genome Res"},{"key":"4908_CR14","doi-asserted-by":"publisher","first-page":"124","DOI":"10.1186\/s13059-016-0985-1","volume":"17","author":"S Eves-van den Akker","year":"2016","unstructured":"Eves-van den Akker S, Laetsch DR, Thorpe P, Lilley CJ, Danchin EGJ, da Rocha M, Rancurel C, Holroyd NE, Cotton JA, Szitenberg A, Grenier E, Montarry J, Mimee B, Duceppe M, Boyes I, Marvin JMC, Jones LM, Yusup HB, Lafond-Lapalme J, Esquibet M, Sabeh M, Rott M, Overmars H, Finkers-Tomczak A, Smant G, Koutsovoulos G, Blok V, Mantelin S, Cock PJA, Phillips W, Henrissat B, Urwin PE, Blaxter M, Jones JT. The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome Biol. 2016;17:124.","journal-title":"Genome Biol"},{"issue":"11","key":"4908_CR15","doi-asserted-by":"publisher","first-page":"1451","DOI":"10.1016\/j.molp.2016.09.008","volume":"9","author":"S Eves-van den Akker","year":"2016","unstructured":"Eves-van den Akker S, Birch PR. Opening the effector protein toolbox for plant\u2013parasitic cyst nematode interactions. Mol Plant. 2016;9(11):1451\u20133.","journal-title":"Mol Plant"},{"key":"4908_CR16","doi-asserted-by":"publisher","first-page":"e1002219","DOI":"10.1371\/journal.ppat.1002219","volume":"7","author":"T Kikuchi","year":"2011","unstructured":"Kikuchi T, Cotton JA, Dalzell JJ, Hasegawa K, Kanzaki N, McVeigh P, Takanashi T, Tsai IJ, Assefa SA, Cock PJA, Otto TD, Hunt M, Reid AJ, Sanchez-Flores A, Tsuchihara K, Yokoi T, Larsson MC, Miwa J, Maule AG, Sahashi N, Jones JT, Berriman M. Genomic insights into the origin of parasitism in the emerging plant pathogen Bursaphelenchus xylophilus. PLoS Pathog. 2011;7:e1002219.","journal-title":"PLoS Pathog"},{"key":"4908_CR17","doi-asserted-by":"publisher","first-page":"927","DOI":"10.1163\/156854109X456862","volume":"11","author":"H van Megen","year":"2009","unstructured":"van Megen H, van den Elsen S, Holterman M, Karssen G, Mooyman P, Bongers T, Holovachov O, Bakker J, Helder J. A phylogenetic tree of nematodes based on about 1200 full-length small subunit ribosomal DNA sequences. Nematol. 2009;11:927\u201350.","journal-title":"Nematol"},{"key":"4908_CR18","doi-asserted-by":"publisher","first-page":"117","DOI":"10.1042\/BJ20042042","volume":"389","author":"T Kikuchi","year":"2005","unstructured":"Kikuchi T, Shibuya H, Jones JT. Molecular and biochemical characterization of an Endo-\u00df-1,3-glucanase from the pine wood nematode Bursaphelenchus xylophilus. Biochem J. 2005;389:117\u201325.","journal-title":"Biochem J"},{"key":"4908_CR19","doi-asserted-by":"publisher","first-page":"63","DOI":"10.1016\/j.ijpara.2011.10.006","volume":"42","author":"JS Kang","year":"2012","unstructured":"Kang JS, Koh YH, Moon YS, Lee SH. Molecular properties of a venom allergen-like protein suggest a parasitic function in the pinewood nematode Bursaphelenchus xylophilus. Int J Parasitol. 2012;42:63\u201370.","journal-title":"Int J Parasitol"},{"key":"4908_CR20","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1016\/j.gene.2007.07.015","volume":"402","author":"J Jacob","year":"2007","unstructured":"Jacob J, Vanholme B, Haegeman A, Gheysen G. Four transthyretin-like genes of the migratory plant-parasitic nematode Radopholus similis: members of an extensive nematode-specific family. Gene. 2007;402:9\u201319.","journal-title":"Gene"},{"issue":"6","key":"4908_CR21","doi-asserted-by":"publisher","first-page":"e67377","DOI":"10.1371\/journal.pone.0067377","volume":"8","author":"R Shinya","year":"2013","unstructured":"Shinya R, Morisaka H, Kikuchi T, Takeuchi Y, Ueda M, Futai K. Secretome analysis of the pine wood nematode Bursaphelenchus xylophilus reveals the tangled roots of parasitism and its potential for molecular mimicry. PLoS One. 2013;8(6):e67377.","journal-title":"PLoS One"},{"key":"4908_CR22","doi-asserted-by":"publisher","first-page":"333","DOI":"10.1146\/annurev-phyto-080516-035434","volume":"55","author":"T Kikuchi","year":"2017","unstructured":"Kikuchi T, Eves-van den Akker S, Jones JT. Genome evolution of plant-parasitic nematodes. Annu Rev Phytopathol. 2017;55:333\u201354.","journal-title":"Annu Rev Phytopathol"},{"key":"4908_CR23","doi-asserted-by":"publisher","first-page":"115","DOI":"10.1038\/nature06203","volume":"450","author":"SC Whisson","year":"2007","unstructured":"Whisson SC, Boevink PC, Moleleki L, Avrova AO, Morales JG, Gilroy EM, Armstrong MR, Grouffaud S, van West P, Chapman S, Hein I, Toth IK, Pritchard L, Birch PRJ. A translocation signal for delivery of oomycete effector proteins into host plant cells. Nat. 2007;450:115\u20138.","journal-title":"Nat"},{"key":"4908_CR24","doi-asserted-by":"publisher","first-page":"385","DOI":"10.1146\/annurev.phyto.42.040103.110731","volume":"42","author":"JR Alfano","year":"2004","unstructured":"Alfano JR, Collmer A. Type III secretion system effector proteins: double agents in bacterial disease and plant defense. Annu Rev Phytopathol. 2004;42:385\u2013414.","journal-title":"Annu Rev Phytopathol"},{"issue":"4","key":"4908_CR25","doi-asserted-by":"publisher","first-page":"422","DOI":"10.1016\/j.pbi.2011.05.003","volume":"14","author":"SA Hogenhout","year":"2011","unstructured":"Hogenhout SA, Bos JIB. Effector proteins that modulate plant\u2013insect interactions. Curr Opin Plant Biol. 2011;14(4):422\u20138.","journal-title":"Curr Opin Plant Biol"},{"key":"4908_CR26","doi-asserted-by":"publisher","first-page":"923","DOI":"10.1186\/1471-2164-15-923","volume":"15","author":"P Thorpe","year":"2014","unstructured":"Thorpe P, Mantelin S, Cock PJ, Blok VC, Coke MC, Eves-van den Akker S, Guzeeva E, Lilley CJ, Smant G, Reid AJ, Wright KM, Urwin PE, Jones JT. Genomic characterization of the effector complement of the potato cyst nematode Globodera pallida. BMC Genomics. 2014;15:923.","journal-title":"BMC Genomics"},{"issue":"4","key":"4908_CR27","doi-asserted-by":"publisher","first-page":"576","DOI":"10.1016\/j.molcel.2010.05.004","volume":"38","author":"S Heinz","year":"2010","unstructured":"Heinz S, Benner C, Spann N, Bertolino E, Lin YC, Laslo P, Cheng JX, Murre C, Singh H, Glass CK. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol Cell. 2010;38(4):576\u201389.","journal-title":"Mol Cell"},{"key":"4908_CR28","doi-asserted-by":"publisher","first-page":"785","DOI":"10.1038\/nmeth.1701","volume":"8","author":"TN Petersen","year":"2011","unstructured":"Petersen TN, Brunak S, von Heijne G, Nielsen H. SignalP 4.0: discriminating signal peptides from transmembrane regions. Nat Methods. 2011;8:785\u20136.","journal-title":"Nat Methods"},{"key":"4908_CR29","first-page":"309","volume":"30","author":"JM de Boer","year":"1998","unstructured":"de Boer JM, Yan Y, Smant G, Davis EL, Baum TJ. In-situ hybridization to messenger RNA in Heterodera glycines. J Nemat. 1998;30:309\u201312.","journal-title":"J Nemat"},{"key":"4908_CR30","first-page":"99","volume":"2","author":"AAF Evans","year":"1970","unstructured":"Evans AAF. Mass culture of mycophagous nematodes. J Nematol. 1970;2:99\u2013100.","journal-title":"J Nematol"},{"key":"4908_CR31","doi-asserted-by":"publisher","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","volume":"30","author":"AM Bolger","year":"2014","unstructured":"Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014;30:2114\u201320. btu170","journal-title":"Bioinformatics"},{"key":"4908_CR32","doi-asserted-by":"publisher","first-page":"R36","DOI":"10.1186\/gb-2013-14-4-r36","volume":"14","author":"D Kim","year":"2013","unstructured":"Kim D, Pertea G, Trapnell C, Pimentel H, Kelley R, Salzberg SL. Tophat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol. 2013;14:R36.","journal-title":"Genome Biol"},{"key":"4908_CR33","doi-asserted-by":"publisher","first-page":"1494","DOI":"10.1038\/nprot.2013.084","volume":"8","author":"BJ Haas","year":"2013","unstructured":"Haas BJ, Papanicolaou A, Yassour M, Grabherr M, Blood PD, Bowden J, Couger MB, Eccles D, Li B, Lieber M, MacManes MD, Ott M, Orvis J, Pochet N, Strozzi F, Weeks N, Westerman R, William T, Dewey CN, Henschel R, LeDuc RD, Friedman N, Regev A. De novo transcript sequence reconstruction from RNA-Seq: reference generation and analysis with trinity. Nat Protoc. 2013;8:1494\u2013512.","journal-title":"Nat Protoc"},{"key":"4908_CR34","doi-asserted-by":"publisher","first-page":"783","DOI":"10.1016\/j.jmb.2004.05.028","volume":"340","author":"JD Bendtsen","year":"2004","unstructured":"Bendtsen JD, Nielsen H, von Heijne G, Brunak S. Improved prediction of signal peptides: SignalP 3.0. J Mol Biol. 2004;340:783\u201395.","journal-title":"J Mol Biol"},{"key":"4908_CR35","doi-asserted-by":"crossref","unstructured":"Cock PJA, Chilton JM, Gr\u00fcning B, Johnson JE, Soranzo N. NCBI BLAST+ integrated into galaxy. GigaScience. 2015;4:39.","DOI":"10.1186\/s13742-015-0080-7"},{"issue":"6","key":"4908_CR36","doi-asserted-by":"publisher","first-page":"e99241","DOI":"10.1371\/journal.pone.0099241","volume":"9","author":"N Kanzaki","year":"2014","unstructured":"Kanzaki N, Tanaka R, Giblin-Davis RM, Davies KA. New plant-parasitic nematode from the mostly Mycophagous genus Bursaphelenchus discovered inside figs in Japan. PLoS One. 2014;9(6):e99241.","journal-title":"PLoS One"}],"updated-by":[{"DOI":"10.1186\/s12864-018-4990-5","type":"correction","label":"Correction","source":"publisher","updated":{"date-parts":[[2018,8,10]],"date-time":"2018-08-10T00:00:00Z","timestamp":1533859200000}}],"container-title":["BMC Genomics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12864-018-4908-2.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/s12864-018-4908-2\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12864-018-4908-2.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,7,26]],"date-time":"2019-07-26T19:05:44Z","timestamp":1564167944000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcgenomics.biomedcentral.com\/articles\/10.1186\/s12864-018-4908-2"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,7,27]]},"references-count":36,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2018,12]]}},"alternative-id":["4908"],"URL":"https:\/\/doi.org\/10.1186\/s12864-018-4908-2","relation":{"correction":[{"id-type":"doi","id":"10.1186\/s12864-018-4990-5","asserted-by":"object"}]},"ISSN":["1471-2164"],"issn-type":[{"value":"1471-2164","type":"electronic"}],"subject":[],"published":{"date-parts":[[2018,7,27]]},"assertion":[{"value":"22 January 2018","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"29 June 2018","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"27 July 2018","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"10 August 2018","order":4,"name":"change_date","label":"Change Date","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"Correction","order":5,"name":"change_type","label":"Change Type","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"Following publication of the original article [1], the authors reported that one of the authors\u2019 names was erroneously changed during proofing and published incorrectly. In this Correction the incorrect and correct author name are shown. The original publication of this article has been corrected.","order":6,"name":"change_details","label":"Change Details","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"Not applicable.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval and consent to participate"}},{"value":"Not applicable.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}},{"value":"The authors declare that they have no competing interests.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}},{"value":"Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Publisher\u2019s Note"}}],"article-number":"553"}}