Phylogenetic and phylogenomic analyses reveal two new genera and three new species of ophiostomatalean fungi from termite fungus combs

LITERATURE CITED

• Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M. 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. Journal of Computational Biology 19:455–477.
   PubMed Web of Science ®Google Scholar
• Bateman C, Huang Y-T, Simmons DR, Kasson MT, Stanley EL, Hulcr J. 2017. Ambrosia beetle Premnobius cavipennis (Scolytinae: Ipini) carries highly divergent ascomycotan ambrosia fungus, Afroraffaelea ambrosiae gen. nov. et sp. nov. (Ophiostomatales). Fungal Ecology 25:41–49.
   Web of Science ®Google Scholar
• Benny G, Kimbrough J. 1980. A synopsis of the orders and families of Olectomycetes with keys to genera. Mycotaxon 12:1–91.
   Web of Science ®Google Scholar
• Blanco-Ulate B, Rolshausen PE, Cantu D. 2013. Draft genome sequence of the grapevine dieback fungus Eutypa lata UCR-EL1. Genome Announcements 1:e00228–13.
   Google Scholar
• Boetzer M, Henkel C, Jansen H, Butler D, Pirovano W. 2011. Scaffolding pre-assembled contigs using SSPACE. Bioinformatics 27:578–579.
   PubMed Web of Science ®Google Scholar
• Boetzer M, Pirovano W. 2012. Toward almost closed genomes with GapFiller. Genome Biology 13:R56.
   PubMed Web of Science ®Google Scholar
• Bolger AM, Lohse M, Usadel B. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30:2114–2120.
   PubMed Web of Science ®Google Scholar
• Capella-Gutiérrez S, Silla-Martínez JM, Gabaldón T. 2009. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 25:1972–1973.
   PubMed Web of Science ®Google Scholar
• Castresana J. 2000. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Molecular Biology and Evolution 17:540–552.
   PubMed Web of Science ®Google Scholar
• Chang R, Duong TA, Taerum SJ, Wingfield MJ, Zhou X, De Beer ZW. 2020. Ophiostomatoid fungi associated with mites phoretic on bark beetles in Qinghai, China. IMA Fungus 11:15.
   Web of Science ®Google Scholar
• D’Alessandro E, Giosa D, Huang L, Zhang J, Gao W, Brankovics B, Oliveira MME, Scordino F, Passo CL, Criseo G, van Diepeningen AD, Huang H, de Hoog GS, Romeo O. 2016. Draft genome sequence of the dimorphic fungus Sporothrix pallida, a nonpathogenic species belonging to Sporothrix a genus containing agents of human and feline sporotrichosis. Genome Announcements 4:e00184-16.
   Google Scholar
• De Beer ZW, Duong TA, Barnes I, Wingfield BD, Wingfield MJ. 2014. Redefining Ceratocystis and allied genera. Studies in Mycology 79:187–219.
   PubMed Web of Science ®Google Scholar
• De Beer ZW, Duong TA, Wingfield MJ. 2016a. The divorce of Sporothrix and Ophiostoma: solution to a problematic relationship. Studies in Mycology 83:165–191.
   PubMed Web of Science ®Google Scholar
• De Beer ZW, Marincowitz S, Duong TA, Kim JJ, Rodrigues A, Wingfield MJ. 2016b. Hawksworthiomyces gen. nov. (Ophiostomatales), illustrates the urgency for a decision on how to name novel taxa known only from environmental nucleic acid sequences (ENAS). Fungal Biology 120:1323–1340.
   Google Scholar
• De Beer ZW, Seifert KA, Wingfield MJ. 2013. The ophiostomatoid fungi: their dual position in the Sordariomycetes. In: Seifert KA, De Beer ZW, Wingfield MJ, eds. The ophiostomatoid fungi: expanding frontiers. CBS Biodiversity Series Vol. 12. Utrecht, The Netherlands: CBS-KNAW Fungal Biodiversity Centre. p. 1–19.
   Google Scholar
• De Beer ZW, Wingfield MJ. 2013. Emerging lineages in the Ophiostomatales. In: Seifert KA, De Beer ZW, Wingfield MJ, eds. The ophiostomatoid fungi: expanding frontiers. CBS Biodiversity Series Vol. 12. Utrecht, The Netherlands: CBS-KNAW Fungal Biodiversity Centre. p. 21–46.
   Google Scholar
• De Lima Barros MB, de Oliveira Schubach A, do Valle ACF, Galhardo MCG, Conceição-Silva F, Schubach TMP, Reis RS, Wanke B, Marzochi KBF, Conceição MJ. 2004. Cat-transmitted sporotrichosis epidemic in Rio de Janeiro, Brazil: description of a series of cases. Clinical Infectious Diseases 38:529–535.
   Google Scholar
• De Meyer EM, De Beer ZW, Summerbell RC, Moharram A, de Hoog GS, Vismer HF, Wingfield MJ. 2008. Taxonomy and phylogeny of new wood-and soil-inhabiting Sporothrix species in the Ophiostoma stenoceras-Sporothrix schenckii complex. Mycologia 100:647–661.
   Web of Science ®Google Scholar
• Dean RA, Talbot NJ, Ebbole DJ, Farman ML, Mitchell TK, Orbach MJ, Thon M, Kulkarni R, Xu J-R, Pan H. 2005. The genome sequence of the rice blast fungus Magnaporthe grisea. Nature 434:980.
   Web of Science ®Google Scholar
• DiGuistini S, Wang Y, Liao NY, Taylor G, Tanguay P, Feau N, Henrissat B, Chan SK, Hesse-Orce U, Massoumi Alamouti S, Tsui CKM, Docking RT, Levasseur A, Haridas S, Robertson G, Birol I, Holt RA, Marra MA, Hamelin RC, Hirst M, Jones SJM, Bohlmann J, Breuil C. 2011. Genome and transcriptome analyses of the mountain pine beetle-fungal symbiont Grosmannia clavigera, a lodgepole pine pathogen. Proceedings of the National Academy of Sciences of the United States of America 108:2504–2509.
   Google Scholar
• Dunn OJ. 1964. Multiple comparisons using rank sums. Technometrics 6:241–252.
   Web of Science ®Google Scholar
• Duong TA, De Beer ZW, Winfield BD, Wingfield MJ. 2013. Characterization of the mating-type genes in Leptographium procerum and Leptographium profanum. Fungal Biology 117:411–421.
   Web of Science ®Google Scholar
• Duong TA, De Beer ZW, Wingfield BD, Wingfield MJ. 2012. Phylogeny and taxonomy of species in the Grosmannia serpens complex. Mycologia 104:715–732.
   Web of Science ®Google Scholar
• Edler D, Klein J, Antonelli A, Silvestro D. 2019. raxmlGUI 2.0 beta: a graphical interface and toolkit for phylogenetic analyses using RAxML. BioRxiv 800912.
   Google Scholar
• Eickwort GC. 1990. Associations of mites with social insects. Annual Review of Entomology 35:469–488.
   Web of Science ®Google Scholar
• Emms D, Kelly S. 2018. STAG: species tree inference from all genes. BioRxiv 267914.
   Google Scholar
• Forgetta V, Leveque G, Dias J, Grove D, Lyons R, Genik S, Wright C, Singh S, Peterson N, Zianni M, Kieleczawa J, Steen R, Perera A, Bintzler D, Adams S, Hintz W, Jacobi V, Bernier L, Levesque R, Dewar K. 2013. Sequencing of the Dutch elm disease fungus genome using the Roche/454 GS-FLX Titanium System in a comparison of multiple genomics core facilities. Journal of Biomolecular Techniques 24:39–49.
   PubMedGoogle Scholar
• Galagan JE, Calvo SE, Borkovich KA, Selker EU, Read ND, Jaffe D, FitzHugh W, Ma L-J, Smirnov S, Purcell S, Rehman B, Elkins T, Engels R, Wang S, Nielsen CB, Butler J, Endrizzi M, Qui D, Ianakiev P, Bell-Pedersen D, Nelson M, Werner-Washburne M, Selitrennikoff CP, Kinsey JA, Braun EL, Zelter A, Schulte U, Kothe GO, Jedd G, Mewes W, Staben C, Marcotte E, Greenberg D, Roy A, Foley K, Naylor J, Stange-Thomann N, Barrett R, Gnerre S, Kamal M, Kamvysselis M, Mauceli E, Bielke C, Rudd S, Frishman D, Krystofova S, Rasmussen C, Metzenberg RL, Perkins DD, Kroken S, Cogoni C, Macino G, Catcheside D, Li W, Pratt RJ, Osmani SA, DeSouza CPC, Glass L, Orbach MJ, Berglund JA, Voelker R, Yarden O, Plamann M, Seiler S, Dunlap J, Radford A, Aramayo R, Narvig DO, Alex LA, Mannhaupt G, Ebbole DJ, Freitag M, Paulsen I, Sachs MS, Lander ES, Nusbaum C, Birren B. 2003. The genome sequence of the filamentous fungus Neurospora crassa. Nature 422:859–868.
   PubMed Web of Science ®Google Scholar
• Gardes M, Bruns TD. 1993. ITS primers with enhanced specificity for basidiomycetes—application to the identification of mycorrhizae and rusts. Molecular Ecology 2:113–118.
   PubMed Web of Science ®Google Scholar
• Geiser DM, Al-Hatmi A, Aoki T, Arie T, Balmas V, Barnes I, Bergstrom GC, Bhattacharyya MKK, Blomquist CL, Bowden R, Brankovics B, Brown DW, Burgess LW, Bushley K, Busman M, Cano-Lira JF, Carrillo JD, Chang HX, Chen CY, Chen W, Chilvers MI, Chulze SN, Coleman JJ, Cuomo CA, de Beer ZW, de Hoog GS, Del Castillo-Múnera J, Del Ponte E, Diéguez-Uribeondo J, Di Pietro A, Edel-Hermann V, Elmer WH, Epstein L, Eskalen A, Esposto MC, Everts KL, Fernández-Pavía SP, da Silva GF, Foroud NA, Fourie G, Frandsen RJN, Freeman S, Freitag M, Frenkel O, Fuller KK, Gagkaeva T, Gardiner DM, Glenn AE, Gold S, Gordon T, Gregory NF, Gryzenhout M, Guarro J, Gugino B, Gutiérrez S, Hammond-Kosack K, Harris LJ, Homa M, Hong CF, Hornok L, Huang JW, Ilkit M, Jacobs A, Jacobs K, Jiang C, Jimenez-Gasco MDM, Kang S, Kasson MT, Kazan K, Kennell JC, Kim H, Kistler HC, Kuldau GA, Kulik T, Kurzai O, Laraba I, Laurence MH, Lee TY, Lee YW, Lee YH, Leslie JF, Liew ECY, Lofton LW, Logrieco A, Sánchez López-Berges M, Luque AG, Lysøe E, Ma LJ, Marra RE, Martin FN, May SR, McCormick S, McGee CT, Meis JF, Migheli Q, Mohamed Nor NMI, Monod M, Moretti A, Mostert D, Mulé G, Munaut F, Munkvold GP, Nicholson P, Nucci M, O’Donnell K, Pasquali M, Pfenning LH, Prigitano A, Proctor R, Ranque S, Rehner S, Rep M, Rodríguez-Alvarado G, Rose LJ, Roth MG, Ruiz-Roldán C, Saleh AA, Salleh B, Sang H, Scandiani M, Scauflaire J, Schmale D III, Short DP, Šišić A, Smith J, Smyth CW, Son H, Spahr E, Stajich JE, Steenkamp E, Steinberg C, Subramaniam R, Suga H, Summerell BA, Susca A, Swett CL, Toomajian C, Torres-Cruz TJ, Tortorano AM, Urban M, Vaillancourt LJ, Vallad GE, van der Lee T, Vanderpool D, van Diepeningen AD, Vaughan M, Venter E, Vermeulen M, Verweij PE, Viljoen A, Waalwijk C, Wallace EC, Walther G, Wang J, Ward T, Wickes B, Wiederhold NP, Wingfield MJ, Wood AKM, Xu JR, Yang XB, Yli-Matilla T, Yun SH, Zakaria L, Zhang H, Zhang N, Zhang S, Zhang X. 2020. Phylogenomic analysis of a 55.1 kb 19-gene dataset resolves a monophyletic Fusarium that includes the Fusarium solani Species Complex. Phytopathology, doi:https://doi.org/10.1094/PHYTO-08-20-0330-LE
   Google Scholar
• Glass NL, Donaldson GC. 1995. Development of primer sets designed for use with the PCR to amplify conserved genes from filamentous ascomycetes. Applied and Environmental Microbiology 61:1323–1330.
   PubMed Web of Science ®Google Scholar
• Haridas S, Wang Y, Lim L, Massoumi Alamouti S, Jackman S, Docking R, Robertson G, Birol I, Bohlmann J, Breuil C. 2013. The genome and transcriptome of the pine saprophyte Ophiostoma piceae, and a comparison with the bark beetle-associated pine pathogen Grosmannia clavigera. BMC Genomics 14:373.
   PubMed Web of Science ®Google Scholar
• Harrington T, Aghayeva D, Fraedrich S. 2010. New combinations in Raffaelea, Ambrosiella, and Hyalorhinocladiella, and four new species from the redbay ambrosia beetle, Xyleborus glabratus. Mycotaxon 111:337–361.
   Web of Science ®Google Scholar
• Hausner G, Reid J, Klassen G. 1993. On the phylogeny of Ophiostoma, Ceratocystis s.s., and Microascus, and the relationships within Ophiostoma based on partial ribosomal DNA sequences. Canadian Journal of Botany 71:1249–1265.
   Google Scholar
• Hawksworth D, Crous P, Redhead S, Reynolds D, Samson R, Seifert KA, Taylor J, Wingfield M, Abaci Ö, Aime C. 2011. The Amsterdam declaration on fungal nomenclature. IMA Fungus 2:105–111.
   PubMed Web of Science ®Google Scholar
• Hoang DT, Chernomor O, von Haeseler A, Minh BQ, Vinh LS. 2018. UFBoot2: improving the ultrafast bootstrap approximation. Molecular Biology and Evolution 35:518–522.
   PubMed Web of Science ®Google Scholar
• Hofstetter RW, Moser J, Blomquist S. 2013. Mites associated with bark beetles and their hyperphoretic Ophiostomatoid fungi. In: Seifert KA, De Beer ZW, Wingfield MJ, eds. The ophiostomatoid fungi: expanding frontiers. CBS Biodiversity Series Vol. 12. Utrecht, The Netherlands: CBS-KNAW Fungal Biodiversity Centre. p. 165–176.
   Google Scholar
• Huang L, Gao W, Giosa D, Criseo G, Zhang J, He T, Huang X, Sun J, Sun Y, Huang J, Zhang Y, Brankovics B, Scordino F, D’Alessandro E, van Diepeningen A, de Hoog S, Huang H, Romeo O. 2016. Whole-genome sequencing and in silico analysis of two strains of Sporothrix globosa. Genome Biology and Evolution 8:3292–3296.
   Web of Science ®Google Scholar
• Jacobs K, Wingfield M, Wingfield B. 2001. Phylogenetic relationships in Leptographium based on morphological and molecular characters. Canadian Journal of Botany 79:719–732.
   Google Scholar
• Jeon J, Kim K-T, Song H, Lee GW, Cheong K, Kim H, Choi G, Lee YH, Stewart JE, Klopfenstein NB, Kim MS. 2017. Draft genome sequence of the fungus associated with oak wilt mortality in South Korea Raffaelea quercus-mongolicae KACC44405. Microbiology Resource Announcements 5:e00797–17.
   Web of Science ®Google Scholar
• Katoh K, Standley D. 2013. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Molecular Biology and Evolution 30:772–780.
   PubMed Web of Science ®Google Scholar
• Khoshraftar S, Hung S, Khan S, Gong Y, Tyagi V, Parkinson J, Sain M, Moses AM, Christendat D. 2013. Sequencing and annotation of the Ophiostoma ulmi genome. BMC Genomics 14:162.
   PubMed Web of Science ®Google Scholar
• Kirisits T. 2013. Dutch elm disease and other Ophiostoma diseases. In: Gonthier P, Nicolotti G, eds. Infectious forest diseases. Wallingford, UK: CABI Publishing. p. 256–282.
   Google Scholar
• Kruskal WH, Wallis WA. 1952. Use of ranks in one-criterion variance analysis. Journal of the American Statistical Association 47:583–621.
   Web of Science ®Google Scholar
• Kück P, Meusemann K. 2010. FASconCAT: convenient handling of data matrices. Molecular Phylogenetics and Evolution 56:1115–1118.
   PubMed Web of Science ®Google Scholar
• Lah L, Löber U, Hsiang T, Hartmann S. 2017. A genomic comparison of putative pathogenicity-related gene families in five members of the Ophiostomatales with different lifestyles. Fungal Biology 121:234–252.
   Web of Science ®Google Scholar
• Lanfear R, Frandsen PB, Wright AM, Senfeld T, Calcott B. 2017. PartitionFinder 2: new methods for selecting partitioned models of evolution for molecular and morphological phylogenetic analyses. Molecular Biology and Evolution 34:772–773.
   PubMed Web of Science ®Google Scholar
• Liu F, Chen S, Ferreira MA, Chang R, Sayari M, Kanzi AM, Wingfield BD, Wingfield MJ, Pizarro D, Crespo A. 2019. Draft genome sequences of five Calonectria species from Eucalyptus plantations in China, Celoporthe dispersa, Sporothrix phasma and Alectoria sarmentosa. IMA Fungus 10:22.
   Web of Science ®Google Scholar
• Malloch DW, Blackwell M. 1993. Dispersal biology of the Ophiostomatoid fungi. In: Wingfield MJ, Seifert KA, Webber J, eds. Ceratocystis and Ophiostoma: taxonomy, ecology and pathogenicity. St. Paul, Minnesota: APS Press. p. 195–206.
   Google Scholar
• Massoumi Alamouti S, Tsui CK, Breuil C. 2009. Multigene phylogeny of filamentous ambrosia fungi associated with ambrosia and bark beetles. Mycological Research 113:822–835.
   PubMed Web of Science ®Google Scholar
• Masuya H, Manabe R-i, Ohkuma M, Endoh R. 2016. Draft genome sequence of Raffaelea quercivora JCM 11526, a Japanese oak wilt pathogen associated with the platypodid beetle, Platypus quercivorus. Microbiology Resource Announcements4:e00755-16.
   Google Scholar
• Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, Lanfear R. 2020. IQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era. Molecular Biology and Evolution 37:1530–1534.
   PubMed Web of Science ®Google Scholar
• Mirarab S, Reaz R, Bayzid MS, Zimmermann T, Swenson MS, Warnow T. 2014. ASTRAL: genome-scale coalescent-based species tree estimation. Bioinformatics 30:i541–i548.
   PubMed Web of Science ®Google Scholar
• Morales-Cruz A, Amrine KCH, Blanco-Ulate B, Lawrence DP, Travadon R, Rolshausen PE, Baumgartner K, Cantu D. 2015. Distinctive expansion of gene families associated with plant cell wall degradation, secondary metabolism, and nutrient uptake in the genomes of grapevine trunk pathogens. BMC Genomics 16:469.
   Web of Science ®Google Scholar
• Moriya S, Inoue T, Ohkuma M, Yaovapa T, Johjima T, Suwanarit P, Sangwanit U, Vongkaluang C, Noparatnaraporn N, Kudo T. 2005. Fungal community analysis of fungus gardens in termite nests. Microbes and Environments 20:243–252.
   Google Scholar
• O’Donnell K, Cigelnik E. 1997. Two divergent intragenomic rDNA ITS2 types within a monophyletic lineage of the fungus Fusarium are non-orthologous. Molecular Phylogenetics and Evolution 7:103–116.
   PubMed Web of Science ®Google Scholar
• Otani S, Challinor VL, Kreuzenbeck NB, Kildgaard S, Christensen SK, Larsen LLM, Aanen DK, Rasmussen SA, Beemelmanns C, Poulsen M. 2019. Disease-free monoculture farming by fungus-growing termites. Scientific Reports 9:8819.
   Web of Science ®Google Scholar
• Roets F, Wingfield BD, de Beer ZW, Wingfield MJ, Dreyer LL. 2010. Two new Ophiostoma species from Protea caffra in Zambia. Persoonia 24:18.
   Web of Science ®Google Scholar
• Ronquist F, Huelsenbeck JP. 2003. MRBAYES 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 17:1572–1574.
   Web of Science ®Google Scholar
• Salichos L, Rokas A. 2013. Inferring ancient divergences requires genes with strong phylogenetic signals. Nature 497:327–331.
   PubMed Web of Science ®Google Scholar
• Schoch CL, Seifert KA, Huhndorf S, Robert V, Spouge JL, Levesque CA, Chen W, the Fungal Barcoding Consortium. 2012. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for fungi. Proceedings of the National Academy of Sciences of the United States of America 109:6241–6246.
   Google Scholar
• Seppey M, Manni M, Zdobnov EM. 2019. BUSCO: assessing genome assembly and annotation completeness. Gene Prediction 3:227–245.
   Google Scholar
• Shen X-X, Hittinger CT, Rokas A. 2017. Contentious relationships in phylogenomic studies can be driven by a handful of genes. Nature Ecology & Evolution 1:0126.
   PubMed Web of Science ®Google Scholar
• Silvestro D, Michalak I. 2012. raxmlGUI: a graphical front-end for RAxML. Organism Diversity and Evolution 12:335–337.
   Web of Science ®Google Scholar
• Six DL. 2012. Ecological and evolutionary determinants of bark beetle-fungus symbioses. Insects 3:339–366.
   Google Scholar
• Spatafora JW, Blackwell M. 1994. The polyphyletic origins of Ophiostomatoid fungi. Mycological Research 98:1–9.
   Web of Science ®Google Scholar
• Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688–2690.
   PubMed Web of Science ®Google Scholar
• Stielow JB, Levesque CA, Seifert KA, Meyer W, Iriny L, Smits D, Renfurm R, Verkley G, Groenewald M, Chaduli D. 2015. One fungus, which genes? Development and assessment of universal primers for potential secondary fungal DNA barcodes. Persoonia 35:242.
   Web of Science ®Google Scholar
• Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. 2013. MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Molecular Biology and Evolution 30:2725–2729.
   Google Scholar
• Teixeira MM, de Almeida LGP, Kubitschek-Barreira P, Alves FL, Kioshima ES, Abadio AKR, Fernandes L, Derengowski LS, Souza RC, Ruiz JC, de Andrade NC, Paes HC, Nicola AM, Albuquerque P, Gerber AL, Martins VP, Peconick LDF, Viggiano Neto A, Chaucanez CB, Silva PA, Cunha OL, de Oliveira FFM, dos Santos TC, Barros ALN, Soares MA, de Oliveira LM, Marini MM, Villalobos-Duno H, Cunha MML, de Hoos S, da Silveira JF, Henrissat B, Nino-Vega GA, Cisalpino PS, Mora-Montes HM, Almeida SR, Stajich JE, Lopes-Bezerra LM, Vasconcelos ATR, Felipe MSS. 2014. Comparative genomics of the major fungal agents of human and animal Sporotrichosis: Sporothrix schenckii and Sporothrix brasiliensis. BMC Genomics 15: 943.
   Google Scholar
• Van der Linde JA, Six DL, De Beer WZ, Wingfield MJ, Roux J. 2016. Novel ophiostomatalean fungi from galleries of Cyrtogenius africus (Scolytinae) infesting dying Euphorbia ingens. Antonie van Leeuwenhoek 109:589–601.
   Web of Science ®Google Scholar
• Van der Nest MA, Bihon W, De Vos L, Naidoo K, Roodt D, Rubagotti E, Slippers B, Steenkamp ET, Wilken PM, Wilson A. 2014. Draft genome sequences of Diplodia sapinea, Ceratocystis manginecans, and Ceratocystis moniliformis. IMA Fungus 5:135–140.
   Web of Science ®Google Scholar
• Vanderpool D, Bracewell RR, McCutcheon JP. 2018. Know your farmer: ancient origins and multiple independent domestications of ambrosia beetle fungal cultivars. Molecular Ecology 27:2077–2094.
   Web of Science ®Google Scholar
• Vilgalys R, Hester M. 1990. Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species. Journal of Bacteriology 172:4238–4246.
   PubMed Web of Science ®Google Scholar
• Visser AA, Kooij PW, Debets AJ, Kuyper TW, Aanen DK. 2011. Pseudoxylaria as stowaway of the fungus-growing termite nest: interaction asymmetry between Pseudoxylaria, Termitomyces and free-living relatives. Fungal Ecology 4:322–332.
   Web of Science ®Google Scholar
• Visser AA, Ros V, De Beer Z, Debets A, Hartog E, Kuyper T, Laessøe T, Slippers B, Aanen D. 2009. Levels of specificity of Xylaria species associated with fungus‐growing termites: a phylogenetic approach. Molecular Ecology 18:553–567.
   PubMed Web of Science ®Google Scholar
• Wang C, Powell JE, O’Connor BM. 2002. Mites and nematodes associated with three subterranean termite species (Isoptera: Rhinotermitidae). Florida Entomologist 85:499–506.
   Web of Science ®Google Scholar
• White TJ, Bruns T, Lee S, Taylor JW. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Gelfand DH, Sinsky JJ, White TJ, eds. PCR protocols: a guide to the methods and applications. New York: Academic Press. p. 315–322.
   Google Scholar
• Wingfield BD, Ades PK, Al-Naemi FA, Beirn LA, Bihon W, Crouch JA, De Beer ZW, De Vos L, Duong TA, Fields CJ. 2015a. Draft genome sequences of Chrysoporthe austroafricana, Diplodia scrobiculata, Fusarium nygamai, Leptographium lundbergii, Limonomyces culmigenus, Stagonosporopsis tanaceti, and Thielaviopsis punctulata. IMA Fungus 6:233–248.
   Web of Science ®Google Scholar
• Wingfield BD, Ambler JM, Coetzee M, De Beer ZW, Duong TA, Joubert F, Hammerbacher A, McTaggart AR, Naidoo K, Nguyen HD. 2016a. Draft genome sequences of Armillaria fuscipes, Ceratocystiopsis minuta, Ceratocystis adiposa, Endoconidiophora laricicola, E. polonica and Penicillium freii DAOMC 242723. IMA Fungus 7:217–227.
   Google Scholar
• Wingfield BD, Barnes I, de Beer ZW, De Vos L, Duong TA, Kanzi AM, Naidoo K, Nguyen HD, Santana QC, Sayari M. 2015b. Draft genome sequences of Ceratocystis eucalypticola, Chrysoporthe cubensis, C. deuterocubensis, Davidsoniella virescens, Fusarium temperatum, Graphilbum fragrans, Penicillium nordicum, and Thielaviopsis musarum. IMA Fungus 6:493–506.
   Google Scholar
• Wingfield BD, Berger DK, Steenkamp ET, Lim H-J, Duong TA, Bluhm BH, De Beer ZW, De Vos L, Fourie G, Naidoo K. 2017. Draft genome of Cercospora zeina, Fusarium pininemorale, Hawksworthiomyces lignivorus, Huntiella decipiens and Ophiostoma ips. IMA Fungus 8: 385–396.
   Google Scholar
• Wingfield BD, Duong TA, Hammerbacher A, van der Nest MA, Wilson A, Chang R, Wilhelm de Beer Z, Steenkamp ET, Markus Wilken P, Naidoo K. 2016b. Draft genome sequences for Ceratocystis fagacearum, C. harringtonii, Grosmannia penicillata, and Huntiella bhutanensis. IMA Fungus 7: 317–323.
   Google Scholar
• Wingfield BD, Liu M, Nguyen HD, Lane FA, Morgan SW, De Vos L, Wilken PM, Duong TA, Aylward J, Coetzee MP. 2018. Nine draft genome sequences of Claviceps purpurea s. lat., including C. arundinis, C. humidiphila, and C. cf. spartinae, pseudomolecules for the pitch canker pathogen Fusarium circinatum, draft genome of Davidsoniella eucalypti, Grosmannia galeiformis, Quambalaria eucalypti, and Teratosphaeria destructans. IMA Fungus 9:401.
   Google Scholar
• Yin M, Duong TA, Wingfield MJ, Zhou X, de Beer ZW. 2015. Taxonomy and phylogeny of the Leptographium procerum complex, including Leptographium sinense sp. nov. and Leptographium longiconidiophorum sp. nov. Antonie van Leeuwenhoek 107:547–563.
   Google Scholar
• Zipfel RD, De Beer ZW, Jacobs K, Wingfield BD, Wingfield MJ. 2006. Multi-gene phylogenies define Ceratocystiopsis and Grosmannia distinct from Ophiostoma. Studies in Mycology 55:75–97.
   PubMed Web of Science ®Google Scholar