{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,13]],"date-time":"2026-07-13T12:07:30Z","timestamp":1783944450649,"version":"3.55.0"},"reference-count":55,"publisher":"Springer Science and Business Media LLC","issue":"1","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Genomics"],"published-print":{"date-parts":[[2012,12]]},"abstract":"<jats:title>Abstract<\/jats:title>\n          <jats:sec>\n            <jats:title>Background<\/jats:title>\n            <jats:p>The fungus <jats:italic>Marssonina brunnea<\/jats:italic> is a causal pathogen of Marssonina leaf spot that devastates poplar plantations by defoliating susceptible trees before normal fall leaf drop.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>We sequence the genome of <jats:italic>M. brunnea<\/jats:italic> with a size of 52 Mb assembled into 89 scaffolds, representing the first sequenced <jats:italic>Dermateaceae<\/jats:italic> genome. By inoculating this fungus onto a poplar hybrid clone, we investigate how <jats:italic>M. brunnea<\/jats:italic> interacts and co-evolves with its host to colonize poplar leaves. While a handful of virulence genes in <jats:italic>M. brunnea<\/jats:italic>, mostly from the LysM family, are detected to up-regulate during infection, the poplar down-regulates its resistance genes, such as nucleotide binding site domains and leucine rich repeats, in response to infection. From 10,027 predicted proteins of <jats:italic>M. brunnea<\/jats:italic> in a comparison with those from poplar, we identify four poplar transferases that stimulate the host to resist <jats:italic>M. brunnea<\/jats:italic>. These transferas-encoding genes may have driven the co-evolution of <jats:italic>M. brunnea<\/jats:italic> and <jats:italic>Populus<\/jats:italic> during the process of infection and anti-infection.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusions<\/jats:title>\n            <jats:p>Our results from the draft sequence of the <jats:italic>M. brunnea<\/jats:italic> genome provide evidence for genome-genome interactions that play an important role in poplar-pathogen co-evolution. This knowledge could help to design effective strategies for controlling Marssonina leaf spot in poplar.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1471-2164-13-382","type":"journal-article","created":{"date-parts":[[2012,8,9]],"date-time":"2012-08-09T10:14:07Z","timestamp":1344507247000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":45,"title":["Sequencing the genome of Marssonina brunnea reveals fungus-poplar co-evolution"],"prefix":"10.1186","volume":"13","author":[{"given":"Sheng","family":"Zhu","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"You-Zhi","family":"Cao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cong","family":"Jiang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bi-Yue","family":"Tan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhong","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sisi","family":"Feng","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Liang","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiao-Hua","family":"Su","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Brona","family":"Brejova","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tomas","family":"Vinar","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Meng","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ming-Xiu","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shou-Gong","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Min-Ren","family":"Huang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rongling","family":"Wu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yan","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2012,8,9]]},"reference":[{"key":"4326_CR1","doi-asserted-by":"publisher","first-page":"409","DOI":"10.1016\/S0269-7491(99)00034-2","volume":"105","author":"JA Beare","year":"1999","unstructured":"Beare JA, Archer SA, Bell JNB: Marssonina leafspot disease of poplar under elevated ozone: pre-fumigated host and in vitro studies. Environ Poll. 1999, 105: 409-417.","journal-title":"Environ Poll"},{"key":"4326_CR2","doi-asserted-by":"publisher","first-page":"614","DOI":"10.1007\/s001220050081","volume":"100","author":"ZM Han","year":"2000","unstructured":"Han ZM, Yin TM, Li CD, Huang MR, Wu RL: Host effect on genetic variation of Marssonina brunnea pathogenic to poplars. Theor Appl Genet. 2000, 100: 614-620.","journal-title":"Theor Appl Genet"},{"key":"4326_CR3","doi-asserted-by":"publisher","first-page":"577","DOI":"10.1046\/j.1469-8137.2003.00968.x","volume":"161","author":"JE Erickson","year":"2004","unstructured":"Erickson JE, Stanosz GR, Kruger EL: Photosynthetic consequences of Marssonina leaf spot differ between two poplar hybrids. New Phytol. 2004, 161: 577-583.","journal-title":"New Phytol"},{"key":"4326_CR4","doi-asserted-by":"publisher","first-page":"175","DOI":"10.1139\/x92-023","volume":"22","author":"RL Wu","year":"1992","unstructured":"Wu RL, Wang MX, Huang MR: Quantitative genetics of yield breeding for Populus short rotation culture. I. Dynamics of genetic control and selection model of yield traits. Can J For Res. 1992, 22: 175-","journal-title":"Can J For Res"},{"key":"4326_CR5","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1016\/j.biombioe.2003.11.001","volume":"27","author":"A Pellis","year":"2004","unstructured":"Pellis A, Laureysens I, Ceulemans R: Growth and production of a short rotation coppice culture of poplar I. Clonal differences in leaf characteristics in relation to biomass production. Biomass Bioenergy. 2004, 27: 9-19.","journal-title":"Biomass Bioenergy"},{"key":"4326_CR6","first-page":"164","volume-title":"State of the World's Forests","author":"FAO (Food and Agriculture Organization of the United Nations)","year":"2011","unstructured":"FAO (Food and Agriculture Organization of the United Nations): State of the World's Forests. 2011, Rome, 164-"},{"key":"4326_CR7","first-page":"59","volume":"34","author":"ZM Han","year":"1998","unstructured":"Han ZM, Li CD, Huang MR: Comparative studies of ioslates of Marssonina brunnea in china. Sci Sil Sin. 1998, 34: 59-65.","journal-title":"Sci Sil Sin"},{"key":"4326_CR8","doi-asserted-by":"publisher","first-page":"309","DOI":"10.1080\/07352680903241063","volume":"28","author":"S Duplessis","year":"2009","unstructured":"Duplessis S, Major I, Martin F, S\u00e9guin A: Poplar and pathogen interactions: Insights from Populus genome-wide analyses of resistance and defense gene families and gene expression profiling. Crit Rev Plant Sci. 2009, 28: 309-334.","journal-title":"Crit Rev Plant Sci"},{"key":"4326_CR9","doi-asserted-by":"publisher","first-page":"980","DOI":"10.1038\/nature03449","volume":"434","author":"RA Dean","year":"2005","unstructured":"Dean RA, Talbot NJ, Ebbole DJ, Farman ML, Mitchell TK, Orbach MC, Thon M, Kulkarni R, Xu JR, Pan H, et al: The genome sequence of the rice blast fungus Magnaporthe grisea. Nature. 2005, 434: 980-986.","journal-title":"Nature"},{"key":"4326_CR10","doi-asserted-by":"publisher","first-page":"97","DOI":"10.1038\/nature05248","volume":"444","author":"J Kamper","year":"2006","unstructured":"Kamper J, Kahmann R, Bolker M, Ma LJ, Brefort T, Saville BJ, Banuett F, Kronstad JW, Gold SE, M\u00fcller O: Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis. Nature. 2006, 444: 97-101.","journal-title":"Nature"},{"key":"4326_CR11","doi-asserted-by":"publisher","first-page":"1400","DOI":"10.1126\/science.1143708","volume":"317","author":"CA Cuomo","year":"2007","unstructured":"Cuomo CA, Guldener U, Xu JR, Trail F, Turgeon BG, et al: The Fusarium graminearum genome reveals a link between localized polymorphism and pathogen specialization. Science. 2007, 317: 1400-1402.","journal-title":"Science"},{"key":"4326_CR12","doi-asserted-by":"publisher","first-page":"9166","DOI":"10.1073\/pnas.1019315108","volume":"108","author":"S Duplessis","year":"2001","unstructured":"Duplessis S, Cuomo CA, Lin YC, Aerts A, Tisserant E, et al: Obligate biotrophy features unraveled by the genomic analysis of rust fungi. Proc Natl Acad Sci U S A. 2001, 108: 9166-9171.","journal-title":"Proc Natl Acad Sci U S A"},{"key":"4326_CR13","doi-asserted-by":"publisher","first-page":"641","DOI":"10.1016\/S1673-8527(07)60073-3","volume":"34","author":"Y Zhang","year":"2007","unstructured":"Zhang Y, Zhang X, Chen Y, Wang Q, Wang M, et al: Function and chromosomal localization of differentially expressed genes induced by Marssonina brunnea f. sp. multigermtubi in Populus deltoides. J Genet Genomics. 2007, 34: 641-648.","journal-title":"J Genet Genomics"},{"key":"4326_CR14","doi-asserted-by":"publisher","first-page":"2406","DOI":"10.1002\/pmic.200900844","volume":"10","author":"Q Cheng","year":"2010","unstructured":"Cheng Q, Cao Y, Jiang C, Xu L, Wang M, et al: Identifying secreted proteins of Marssonina brunnea by degenerate PCR. Proteomics. 2010, 10: 2406-2417.","journal-title":"Proteomics"},{"key":"4326_CR15","doi-asserted-by":"publisher","first-page":"e1002230","DOI":"10.1371\/journal.pgen.1002230","volume":"7","author":"J Amselem","year":"2011","unstructured":"Amselem J, Cuomo CA, van Kan JA, Viaud M, Benito EP, et al: Genomic analysis of the necrotrophic fungal pathogens sclerotinia sclerotiorum and botrytis cinerea. PLoS Genet. 2011, 7: e1002230-","journal-title":"PLoS Genet"},{"key":"4326_CR16","doi-asserted-by":"publisher","first-page":"1596","DOI":"10.1126\/science.1128691","volume":"313","author":"GA Tuskan","year":"2006","unstructured":"Tuskan GA, Difazio S, Jansson S, Bohlmann J, Grigoriev I, et al: The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science. 2006, 313: 1596-1604.","journal-title":"Science"},{"key":"4326_CR17","doi-asserted-by":"publisher","first-page":"1920","DOI":"10.1126\/science.289.5486.1920","volume":"289","author":"D Redecker","year":"2000","unstructured":"Redecker D, Kodner R, Graham LE: Glomalean fungi from the Ordovician. Science. 2000, 289: 1920-1921.","journal-title":"Science"},{"key":"4326_CR18","doi-asserted-by":"publisher","first-page":"R25","DOI":"10.1186\/gb-2009-10-3-r25","volume":"10","author":"B Langmead","year":"2009","unstructured":"Langmead B, Trapnell C, Pop M, Salzberg SL: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009, 10: R25-","journal-title":"Genome Biol"},{"key":"4326_CR19","doi-asserted-by":"publisher","first-page":"818","DOI":"10.1038\/nature05110","volume":"443","author":"TY James","year":"2006","unstructured":"James TY, Kauff F, Schoch CL, Matheny PB, Hofstetter V, et al: Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature. 2006, 443: 818-822.","journal-title":"Nature"},{"key":"4326_CR20","doi-asserted-by":"publisher","first-page":"49","DOI":"10.1093\/aob\/mcg007","volume":"91","author":"G Sonnante","year":"2003","unstructured":"Sonnante G, Galasso I, Pignone D: ITS sequence analysis and phylogenetic inference in the genus Lens mill. Ann Bot. 2003, 91: 49-54.","journal-title":"Ann Bot"},{"key":"4326_CR21","doi-asserted-by":"publisher","first-page":"799","DOI":"10.1641\/B580907","volume":"58","author":"KG Peay","year":"2008","unstructured":"Peay KG, Kennedy PG, Bruns TD: Fungal community ecology: a hybrid beast with a molecular master. Bioscience. 2008, 58: 799-810.","journal-title":"Bioscience"},{"key":"4326_CR22","doi-asserted-by":"publisher","first-page":"28","DOI":"10.1186\/1471-2180-5-28","volume":"5","author":"KJ Martin","year":"2005","unstructured":"Martin KJ, Rygiewicz PT: Fungal-specific PCR primers developed for analysis of the ITS region of environmental DNA extracts. BMC Microbiol. 2005, 5: 28-","journal-title":"BMC Microbiol"},{"key":"4326_CR23","doi-asserted-by":"publisher","first-page":"484","DOI":"10.3852\/08-085","volume":"101","author":"G Gurjar","year":"2009","unstructured":"Gurjar G, Barve M, Giri A, Gupta V: Identification of Indian pathogenic races of Fusarium oxysporum f. sp. ciceris with gene specific, ITS and random markers. Mycologia. 2009, 101: 484-495.","journal-title":"Mycologia"},{"key":"4326_CR24","doi-asserted-by":"publisher","first-page":"1061","DOI":"10.1093\/bioinformatics\/btm071","volume":"23","author":"G Parra","year":"2007","unstructured":"Parra G, Bradnam K, Korf I: CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes. Bioinformatics. 2007, 23: 1061-1067.","journal-title":"Bioinformatics"},{"key":"4326_CR25","doi-asserted-by":"publisher","first-page":"289","DOI":"10.1093\/nar\/gkn916","volume":"37","author":"G Parra","year":"2009","unstructured":"Parra G, Bradnam K, Ning Z, Keane T, Korf I: Assessing the gene space in draft genomes. Nucleic Acids Res. 2009, 37: 289-297.","journal-title":"Nucleic Acids Res"},{"key":"4326_CR26","doi-asserted-by":"publisher","first-page":"e1000486","DOI":"10.1371\/journal.ppat.1000486","volume":"5","author":"JJ Coleman","year":"2009","unstructured":"Coleman JJ, Mylonakis E: Efflux in fungi: la piece de resistance. PLoS Pathog. 2009, 5: e1000486-","journal-title":"PLoS Pathog"},{"key":"4326_CR27","doi-asserted-by":"publisher","first-page":"1219","DOI":"10.1534\/genetics.103.025700","volume":"168","author":"H Tsubouchi","year":"2004","unstructured":"Tsubouchi H, Roeder GS: The budding yeast mei5 and sae3 proteins act together with dmc1 during meiotic recombination. Genetics. 2004, 168: 1219-1230.","journal-title":"Genetics"},{"key":"4326_CR28","doi-asserted-by":"publisher","first-page":"151","DOI":"10.1016\/j.tim.2009.01.002","volume":"17","author":"R de Jonge","year":"2009","unstructured":"de Jonge R, Thomma BP: Fungal LysM effectors: extinguishers of host immunity?. Trend Microbiol. 2009, 17: 151-157.33.","journal-title":"Trend Microbiol"},{"key":"4326_CR29","doi-asserted-by":"publisher","first-page":"953","DOI":"10.1126\/science.1190859","volume":"329","author":"R de Jonge","year":"2010","unstructured":"de Jonge R, van Esse HP, Kombrink A, Shinya T, Desaki Y, et al: Conserved fungal LysM effector Ecp6 prevents chitin-triggered immunity in plants. Science. 2010, 329: 953-955.","journal-title":"Science"},{"key":"4326_CR30","doi-asserted-by":"publisher","first-page":"400","DOI":"10.1016\/j.pbi.2011.03.005","volume":"14","author":"R de Jonge","year":"2011","unstructured":"de Jonge R, Bolton MD, Thomma BP: How filamentous pathogens co-opt plants: the ins and outs of fungal effectors. Curr Opin Plant Biol. 2011, 14: 400-406.","journal-title":"Curr Opin Plant Biol"},{"key":"4326_CR31","first-page":"143","volume":"274","author":"W Wang","year":"2003","unstructured":"Wang W: The SWI\/SNF family of ATP-dependent chromatin remodelers: similar mechanisms for diverse functions. Curr Top Microbiol Immunol. 2003, 274: 143-169.","journal-title":"Curr Top Microbiol Immunol"},{"key":"4326_CR32","doi-asserted-by":"publisher","first-page":"4260","DOI":"10.1091\/mbc.E08-02-0173","volume":"19","author":"Y Lu","year":"2008","unstructured":"Lu Y, Su C, Mao X, Raniga PP, Liu H, et al: Efg1-mediated recruitment of NuA4 to promoters is required for hypha-specific Swi\/Snf binding and activation in Candida albicans. Mol Biol Cell. 2008, 19: 4260-4272.","journal-title":"Mol Biol Cell"},{"key":"4326_CR33","doi-asserted-by":"publisher","first-page":"1944","DOI":"10.1093\/nar\/gkg293","volume":"31","author":"G Mannhaupt","year":"2003","unstructured":"Mannhaupt G, Montrone C, Haase D, Mewes HW, Aign V, et al: What's in the genome of a filamentous fungus? Analysis of the Neurospora genome sequence. Nucleic Acids Res. 2003, 31: 1944-1954.","journal-title":"Nucleic Acids Res"},{"key":"4326_CR34","doi-asserted-by":"publisher","first-page":"235","DOI":"10.1111\/j.1365-313X.2008.03772.x","volume":"58","author":"SJ Kwon","year":"2009","unstructured":"Kwon SJ, Jin HC, Lee S, Nam MH, Chung JH, et al: GDSL lipase-like 1 regulates systemic resistance associated with ethylene signaling in Arabidopsis. Plant J. 2009, 58: 235-245.","journal-title":"Plant J"},{"key":"4326_CR35","doi-asserted-by":"publisher","first-page":"D814","DOI":"10.1093\/nar\/gkp978","volume":"38","author":"W Sanseverino","year":"2010","unstructured":"Sanseverino W, Roma G, De Simone M, Faino L, Melito S, et al: PRGdb: a bioinformatics platform for plant resistance gene analysis. Nucleic Acids Res. 2010, 38: D814-D821.","journal-title":"Nucleic Acids Res"},{"key":"4326_CR36","doi-asserted-by":"crossref","first-page":"203","DOI":"10.1007\/s002399910023","volume":"50","author":"Q Pan","year":"2000","unstructured":"Pan Q, Wendel J, Fluhr R: Divergent evolution of plant NBS-LRR resistance gene homologues in dicot and cereal genomes. J Mol Evol. 2000, 50: 203-213.","journal-title":"J Mol Evol"},{"key":"4326_CR37","doi-asserted-by":"publisher","first-page":"806","DOI":"10.1105\/tpc.150470","volume":"15","author":"NA Eckardt","year":"2003","unstructured":"Eckardt NA, Innes R: Resistance rodeo: rounding up the full complement of Arabidopsis NBS-LRR genes. Plant Cell. 2003, 15: 806-807.","journal-title":"Plant Cell"},{"key":"4326_CR38","doi-asserted-by":"publisher","first-page":"172","DOI":"10.1105\/tpc.016352","volume":"16","author":"D Taler","year":"2004","unstructured":"Taler D, Galperin M, Benjamin I, Cohen Y, Kenigsbuch D: Plant eR genes that encode photorespiratory enzymes confer resistance against disease. Plant Cell. 2004, 16: 172-184.","journal-title":"Plant Cell"},{"key":"4326_CR39","doi-asserted-by":"publisher","first-page":"e1000247","DOI":"10.1371\/journal.ppat.1000247","volume":"4","author":"CM Carvalho","year":"2008","unstructured":"Carvalho CM, Santos AA, Pires SR, Rocha CS, Saraiva DI, et al: Regulated nuclear trafficking of rpL10A mediated by NIK1 represents a defense strategy of plant cells against virus. PLoS Pathog. 2008, 4: e1000247-","journal-title":"PLoS Pathog"},{"key":"4326_CR40","doi-asserted-by":"publisher","first-page":"e5781","DOI":"10.1371\/journal.pone.0005781","volume":"4","author":"AA Santos","year":"2009","unstructured":"Santos AA, Carvalho CM, Florentino LH, Ramos HJ, Fontes EP: Conserved threonine residues within the A-loop of the receptor NIK differentially regulate the kinase function required for antiviral signaling. PLoS One. 2009, 4: e5781-","journal-title":"PLoS One"},{"key":"4326_CR41","doi-asserted-by":"publisher","first-page":"19613","DOI":"10.1073\/pnas.0705147104","volume":"104","author":"A Miya","year":"2007","unstructured":"Miya A, Albert P, Shinya T, Desaki Y, Ichimura K, et al: CERK1, a LysM receptor kinase, is essential for chitin elicitor signaling in Arabidopsis. Proc Natl Acad Sci U S A. 2007, 104: 19613-19618.","journal-title":"Proc Natl Acad Sci U S A"},{"key":"4326_CR42","doi-asserted-by":"publisher","first-page":"423","DOI":"10.1016\/j.cub.2009.01.054","volume":"19","author":"S Gimenez-Ibanez","year":"2009","unstructured":"Gimenez-Ibanez S, Hann DR, Ntoukakis V, Petutschnig E, Lipka V, et al: AvrPtoB targets the LysM receptor kinase CERK1 to promote bacterial virulence on plants. Curr Biol. 2009, 19: 423-429.","journal-title":"Curr Biol"},{"key":"4326_CR43","doi-asserted-by":"crossref","first-page":"9155","DOI":"10.1016\/S0021-9258(19)76520-X","volume":"263","author":"F Kepes","year":"1988","unstructured":"Kepes F, Schekman R: The yeast SEC53 gene encodes phosphomannomutase. J Biol Chem. 1988, 263: 9155-9161.","journal-title":"J Biol Chem"},{"key":"4326_CR44","doi-asserted-by":"publisher","first-page":"501","DOI":"10.1007\/BF00326416","volume":"22","author":"DJ Smith","year":"1992","unstructured":"Smith DJ, Cooper M, DeTiani M, Losberger C, Payton MA: The Candida albicans PMM1 gene encoding phosphomannomutase complements a Saccharomyces cerevisiae sec 53\u20136 mutation. Curr Genet. 1992, 22: 501-503.","journal-title":"Curr Genet"},{"key":"4326_CR45","doi-asserted-by":"publisher","first-page":"399","DOI":"10.1111\/j.1365-313X.2006.02967.x","volume":"49","author":"W Qian","year":"2007","unstructured":"Qian W, Yu C, Qin H, Liu X, Zhang A, et al: Molecular and functional analysis of phosphomannomutase (PMM) from higher plants and genetic evidence for the involvement of PMM in ascorbic acid biosynthesis in Arabidopsis and Nicotiana benthamiana. Plant J. 2007, 49: 399-413.","journal-title":"Plant J"},{"key":"4326_CR46","doi-asserted-by":"publisher","first-page":"17150","DOI":"10.1074\/jbc.M602086200","volume":"281","author":"CA Sellick","year":"2006","unstructured":"Sellick CA, Reece RJ: Contribution of amino acid side chains to sugar binding specificity in a galactokinase, Gal1p, and a transcriptional inducer, Gal3p. J Biol Chem. 2006, 281: 17150-17155.","journal-title":"J Biol Chem"},{"key":"4326_CR47","doi-asserted-by":"publisher","first-page":"497","DOI":"10.1023\/A:1005816104743","volume":"34","author":"CP Kaplan","year":"1997","unstructured":"Kaplan CP, Tugal HB, Baker A: Isolation of a cDNA encoding an Arabidopsis galactokinase by functional expression in yeast. Plant Mol Biol. 1997, 34: 497-506.","journal-title":"Plant Mol Biol"},{"key":"4326_CR48","first-page":"675","volume":"2008","author":"PG Kim","year":"2008","unstructured":"Kim PG, Cho HG, Park K: A scaffold analysis tool using mate-pair information in genome sequencing. J Biomed Biotechnol. 2008, 2008: 675-741.","journal-title":"J Biomed Biotechnol"},{"key":"4326_CR49","doi-asserted-by":"publisher","first-page":"821","DOI":"10.1101\/gr.074492.107","volume":"18","author":"DR Zerbino","year":"2008","unstructured":"Zerbino DR, Birney E: Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 2008, 18: 821-829.","journal-title":"Genome Res"},{"key":"4326_CR50","doi-asserted-by":"publisher","first-page":"R25","DOI":"10.1186\/gb-2009-10-3-r25","volume":"10","author":"B Langmead","year":"2009","unstructured":"Langmead B, Trapnell C, Pop M, Salzberg SL: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009, 10: R25-","journal-title":"Genome Biol"},{"key":"4326_CR51","doi-asserted-by":"publisher","first-page":"D61","DOI":"10.1093\/nar\/gkl842","volume":"35","author":"KD Pruitt","year":"2007","unstructured":"Pruitt KD, Tatusova T, Maglott DR: NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2007, 35: D61-D65.","journal-title":"Nucleic Acids Res"},{"key":"4326_CR52","doi-asserted-by":"publisher","first-page":"D355","DOI":"10.1093\/nar\/gkp896","volume":"38","author":"M Kanehisa","year":"2010","unstructured":"Kanehisa M, Goto S, Furumichi M, Tanabe M, Hirakawa M: KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res. 2010, 38: D355-D360.","journal-title":"Nucleic Acids Res"},{"key":"4326_CR53","first-page":"bar009","volume-title":"UniProt Knowledgebase: a hub of integrated protein data","author":"M Magrane","year":"2011","unstructured":"Magrane M, Consortium U: UniProt Knowledgebase: a hub of integrated protein data. 2011, Oxford: Database, bar009-"},{"key":"4326_CR54","first-page":"bar001","volume-title":"FunSecKB: the Fungal Secretome KnowledgeBase","author":"G Lum","year":"2011","unstructured":"Lum G, Min XJ: FunSecKB: the Fungal Secretome KnowledgeBase. 2011, Oxford: Database, bar001-"},{"key":"4326_CR55","doi-asserted-by":"publisher","first-page":"D572","DOI":"10.1093\/nar\/gkm858","volume":"36","author":"R Winnenburg","year":"2008","unstructured":"Winnenburg R, Urban M, Beacham A, Baldwin TK, Holland S, et al: PHI-base update: additions to the pathogen host interaction database. Nucleic Acids Res. 2008, 36: D572-D576.","journal-title":"Nucleic Acids Res"}],"container-title":["BMC Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2164-13-382.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,9,1]],"date-time":"2021-09-01T20:02:54Z","timestamp":1630526574000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcgenomics.biomedcentral.com\/articles\/10.1186\/1471-2164-13-382"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012,8,9]]},"references-count":55,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2012,12]]}},"alternative-id":["4326"],"URL":"https:\/\/doi.org\/10.1186\/1471-2164-13-382","relation":{},"ISSN":["1471-2164"],"issn-type":[{"value":"1471-2164","type":"electronic"}],"subject":[],"published":{"date-parts":[[2012,8,9]]},"assertion":[{"value":"1 March 2012","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"3 July 2012","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"9 August 2012","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"382"}}