ITS phylogeny and taxonomy of Phyllachora species on native Myrtaceae from the Brazilian Cerrado

Literature cited

• Batista AC.1958. Alguns Dothideaceae e Phyllachoraceae estudados em Pernambuco. Rev Biol Lisboa 1:299–312.
   Google Scholar
• Batista ACBezerra JL. 1961. Akapopeltis e Paraphysotheca, novos gêneros de fungos Micropeltaceae. Publ Inst Micol Univ Pernambuco 313:1–22.
   Google Scholar
• Batista ACBezerra JLPeres GEP.1964a. Alguns Phyllachora Nits. do Pará e do Amazonas. Publ Inst Micol Univ Pernambuco 437:1–14.
   Google Scholar
• Batista ACMaia HSNascimento ML.1960. Ascomycetes vulgares ou novos. Atas Inst Micol Univ Pernambuco 1:283–303.
   Google Scholar
• Batista ACPeres GEP. 1960. Duas interessantes espécies de Melasmia Lév. e Melophia Sacc. Publ Inst Micol Univ Pernambuco 281:1–12.
   Google Scholar
• Batista ACPeres GEPMaia HS.1967. Alguns Phyllachora dos Cerrados e de outras áreas fisiográficas brasileiras. Atas Inst Micol Univ Pernambuco 4:63–81.
   Google Scholar
• Batista ACPowell DPeres GEP.1964b. Ophiodothella (P. Henn.) Höhn. e Plactosphaera Theiss., algumas espécies revistas no lMUR. Atas Inst Micol Univ Pernambuco 4:11–28.
   Google Scholar
• Batista ACVital AF.1957. Adenda à microflora de Pernambuco. An Soc Biol Pernambuco 12:55–61.
   Google Scholar
• Cannon PF.1991 . A revision of Phyllachora and some similar genera on the host family Leguminosae. Wallingford, UK: CAB International. Mycol Papers 163:1–302.
   Google Scholar
• Chardon CEMiller JHMuller AS.1940. Ascomycetes from the state of Minas Gerais (Brazil). Mycologia 32:172–204 doi:10.2307/3754493
   Google Scholar
• Costa LCMacedo DMBarreto RW.2012. Reappraisal and neotypification of Phyllachora feijoae. IMA Fungus 3:9–14 doi:10.5598/imafungus.2012.03.01.02
   Web of Science ®Google Scholar
• Darriba DTaboada GLDoallo RPosada D.2012. jModelTest 2: more models, new heuristics and parallel computing. Nat Methods 9:772 doi:10.1038/nmeth.2109
   PubMed Web of Science ®Google Scholar
• Dianese JCMedeiros RBSantos LTP.1997. Biodiversity of microfungi found on native plants of the Brazilian Cerrado. In: Hyde KDed. Biodiversity of tropical microfungi. Hong Kong: Univ. Hong Kong. p 367–397.
   Google Scholar
• Dianese JCSutton BCTessmann DJ.1993d. Two deuteromycetes, Phloeosporella flavio-moralis sp. nov. and Pseudocercospora punctata comb. nov. causing leaf lesions on Eugenia spp. Mycol Res 97:123–126 doi:10.1016/S0953-7562(09)81169-6
   Google Scholar
• Doyle JJDoyle JL.1987. A rapid isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull 19:11–15.
   Google Scholar
• Felsenstein J.1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:779–783 doi:10.2307/2408678
   Web of Science ®Google Scholar
• Guindon SGascuel O.2003. A simple, fast, and accurate method to estimate large phylogenies by maximum-likelihood. Syst Biol 52:696–704 doi:10.1080/10635150390235520
   PubMed Web of Science ®Google Scholar
• Habibi ABanihashemi ZMostowfizadeh-Ghalamfarsa R.2015. Phylogenetic analysis of Polystigma and its relationship to Phyllachorales. Phytopathol Mediterr 54:45-54.
   Web of Science ®Google Scholar
• Higgins DGSharp PM.1988. Clustal: a package for performing multiple sequence alignment on a microcomputer. Gene 73:237–244 doi:10.1016/0378-1119(88)90330-7
   PubMed Web of Science ®Google Scholar
• Lumbsch HTHuhndorf MS.2010. Part one. Outline of Ascomycota 2009. Myconet 14:1–40.
   Google Scholar
• Maharachchikumbura SSHyde KDJones EGMcKenzie EHHuang SKAbdel-Wahab MXu J.2015. Towards a natural classification and backbone tree for Sordariomycetes. Fungal Divers 72:199-301 doi:10.1007/s13225-015-0331-z
   Web of Science ®Google Scholar
• Martin PKaygordova ISherbakov DYVerheyen E.2000. Rapidly evolving lineages impede the resolution of phylogenetic relationships among Clitellata (Annelida). Mol Phylogenet Evol 15:355–368 doi:10.1006/mpev.1999.0764
   PubMed Web of Science ®Google Scholar
• Medeiros RB.1994. Phyllachorales e gêneros afins associados à vegetação nativa dos Cerrados [master’s thesis].Brasília: University of Brasília. 106 p.
   Google Scholar
• Mendes MASSilva VLDianese JCFerreira MASVSantos CENGomes-Neto EUrben AFCastro C.1998. Fungos em plantas no Brasil. Brasília: Embrapa Recursos Genéticos e Biotecnologia. 569 p.
   Google Scholar
• Mendonça RCFelfili JMWalter BMTSilva-Júnior MCRezende AVFilgueiras TSNogueira PEFagg CW.2008. Flora vascular do bioma Cerrado, checklist com 12.356 espécies. In: Sano SMAlmeida SPRibeiro JF eds. Cerrado: ecologia e flora, 2. Planaltina, Brazil: Embrapa Cerrados. p 418–442.
   Google Scholar
• Müller KQuandt DMüller JNeinhuis C.2006. PhyDE®: Phylogenetic Data Editor 0.995. www.phyde.de
   Google Scholar
• Myers NMittermeier CGMittermeier GABFKents J.2000. Biodiversity hotspots for conservation priorities. Nature 403:853–858 doi:10.1038/35002501
   PubMed Web of Science ®Google Scholar
• Pearce CAReddell PHyde KD.1999. A revision of Phyllachora (Ascomycotina) on hosts in the angiosperm family Asclepiadaceae, including P. gloriana sp. nov. on Tylophora benthamii from Australia. Fungal Divers 3:123–138.
   Google Scholar
• Rambaut ADrummond AJ.2013. Tracer 1.4. Available from http://beast.bio.ed.ac.uk/Tracer
   Google Scholar
• Ronquist FTeslenko MVan der Mark PAyres DLDarling AOhna SHLarget BLiu LSuchard MAHuelsenbeck JP.2012. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol 61:539–542 doi:10.1093/sysbio/sys029
   PubMed Web of Science ®Google Scholar
• Saccardo PA.1883. Syll Fung II:597.
   Google Scholar
• Schoch CLSung G-HLópez-Giráldez FTownsend JPMiadlikowska JHofstetter VRobbertse BMatheny BKauff FWang ZGueidan CAndrie RMTrippe KCiufetti LMWynns AFraker EHodkinson BPBonito GGroenewald JZArzanlou MHoog GSCrous PWHewitt DPfister DPeterson KGryzenhout MWingfield MJAptroot ASuh S-OBlackwell MHillis DMGriffith GWCastlebury LARossman ALumbsch HTLücking RBüdel BRauhut ADiederich PErtz DGeiser DMHosaka KInderbitzin PKohlmeyer JVolkmann-Kohlmeyer BMostert LO’Donnell KSipman HRogers JDShoemaker RSugiyama JSummerbell RCUntereiner WJohnston PRStenroos SZuccaro ADyer PSCrittenden PDCole MSHansen KTrappe JMYahr RLutzoni FSpatafora JW.2009. Ascomycota Tree of Life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits. Syst Biol 58:224–239 doi:10.1093/sysbio/syp020
   PubMed Web of Science ®Google Scholar
• Shaw AJCox CJGoffinet BBuck WRBoles SB.2003. Phylogenetic evidence of a rapid radiation of pleurocarpous mosses (Bryophyta). Evolution 57:2226–2241 doi:10.1111/j.0014-3820.2003.tb00235.x
   PubMed Web of Science ®Google Scholar
• Swofford DL.2002. PAUP* 4: phylogenetic analysis using parsimony (*and other methods). Sunderland, Massachusetts: Sinauer Associates.
   Google Scholar
• Tang AMCJeewon RHyde KD.2007. Phylogenetic utility of protein (RPB2, beta-tubulin) and ribosomal (LSU, SSU) gene sequences in the systematics of Sordariomycetes (Ascomycota, Fungi). Antonie Van Leeuwenhoek 91:327–349 doi:10.1007/s10482-006-9120-8
   PubMed Web of Science ®Google Scholar
• Untereiner WABogale MCarter APlatt HWHanson SLaesøe TStepánek VRéblova M.2013. Molecular phylogeny of Boliniales (Sordariomycetes) with assesment of the systematics of Apiorhynchostoma, Edoxyla and Pseudovalsaria. Mycologia 105:564–588 doi:10.3852/12-326
   Web of Science ®Google Scholar
• Viégas AP. 1943a. Alguns fungos do cerrado. Bragantia 3:49–72 doi:10.1590/S0006-87051943000800003
   Google Scholar
• Viégas AP. 1943b. Notas sobre três fungos brasileiros. Bragantia 3:31–48.
   Google Scholar
• Viégas AP. 1944a. Alguns fungos do Brasil. II. Ascomycetos. Bragantia 4:1–492.
   Google Scholar
• Viégas AP. 1944b. Alguns fungos esparsos brasileiros. Bol Soc Bras Agronomia 7:367–383.
   Google Scholar
• Viégas AP. 1944c. Quatro fungos brasileiros. Bol Soc Bras Agronomia 7:59–70.
   Google Scholar
• Viégas AP. 1945a. Fungi aliquota brasiliensis. Bol Soc Bras Agronomia 8:161–173.
   Google Scholar
• Viégas AP. 1945b. Uns poucos fungos do Brasil. Bragantia 5:561–582.
   Google Scholar
• Viégas AP. 1946. Quatro ascomicetos novos brasileiros. Bol Soc Bras Agronomia 9:14.
   Google Scholar
• Viégas AP. 1947. Alguns micetos brasileiros. Bragantia 7:25–48.
   Google Scholar
• Viégas APTeixeira CG.1945. Alguns fungos de Minas Gerais. Rodriguésia 9:49–56.
   Google Scholar
• Wanderlei-Silva DRamalho-Neto EHanlin R.2003. Molecular systematics of the Phyllachorales (Ascomycota, Fungi) based on 18S ribosomal DNA sequences. Braz Arch Biol Technol 46:315–322 doi:10.1590/S1516-89132003000300002
   Web of Science ®Google Scholar
• White TJBruns TLee STaylor JW.1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MAGelfand DHSninsky JJWhite TJ eds. PCR protocols: a guide to methods and applications. New York: Academic Press. p 315–322.
   Google Scholar
• Zhang LCastlebury LAMiller NHuhndorf SMSchoch CLSeifert KARossman AYRogers JDKohlmeyer JVolkmann-Kohlmeyer BSung G.2006. An overview of the systematic of the Soradiomycetes based on a four-gene phylogeny. Mycologia 98:1076–1087 doi:10.3852/mycologia.98.6.1076
   PubMed Web of Science ®Google Scholar
• Zhang NWang Z.2015. Pezizomycotina: Sordariomycetes and Leotiomycetes. In: McLaughlin DJSpatafora JW eds. Mycota VII. Systematics and evolution. Part B. 2nd ed. Berlin: Springer. p 57–88.
   Google Scholar
• Zwickl DJ.2006. Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion [doctoral dissertation].Austin: Univ. Texas. 115 p.
   Google Scholar