Title : Genome-scale phylogeny and comparative genomics of the fungal order Sordariales - Hensen_2023_Mol.Phylogenet.Evol_189_107938 |
Author(s) : Hensen N , Bonometti L , Westerberg I , Brannstrom IO , Guillou S , Cros-Aarteil S , Calhoun S , Haridas S , Kuo A , Mondo S , Pangilinan J , Riley R , LaButti K , Andreopoulos B , Lipzen A , Chen C , Yan M , Daum C , Ng V , Clum A , Steindorff A , Ohm RA , Martin F , Silar P , Natvig DO , Lalanne C , Gautier V , Ament-Velasquez SL , Kruys , Hutchinson MI , Powell AJ , Barry K , Miller AN , Grigoriev IV , Debuchy R , Gladieux P , Hiltunen Thoren M , Johannesson H |
Ref : Mol Phylogenet Evol , 189 :107938 , 2023 |
Abstract : |
PubMedSearch : Hensen_2023_Mol.Phylogenet.Evol_189_107938 |
PubMedID: 37820761 |
Gene_locus related to this paper: sorbr-a0aae0u241 , sorbr-a0aae0u2g0 , sorbr-a0aae0ufw6 |
Title : Genome expansion by allopolyploidization in the fungal strain Coniochaeta 2T2.1 and its exceptional lignocellulolytic machinery - Mondo_2019_Biotechnol.Biofuels_12_229 |
Author(s) : Mondo SJ , Jimenez DJ , Hector RE , Lipzen A , Yan M , LaButti K , Barry K , van Elsas JD , Grigoriev IV , Nichols NN |
Ref : Biotechnol Biofuels , 12 :229 , 2019 |
Abstract : |
PubMedSearch : Mondo_2019_Biotechnol.Biofuels_12_229 |
PubMedID: 31572496 |
Gene_locus related to this paper: 9pezi-a0a5n5p0y9 , 9pezi-a0a5n5pg71 , 9pezi-a0a5n5ld08 |
Title : Genomics and Development of Lentinus tigrinus: A White-Rot Wood-Decaying Mushroom with Dimorphic Fruiting Bodies - Wu_2018_Genome.Biol.Evol_10_3250 |
Author(s) : Wu B , Xu Z , Knudson A , Carlson A , Chen N , Kovaka S , LaButti K , Lipzen A , Pennachio C , Riley R , Schakwitz W , Umezawa K , Ohm RA , Grigoriev IV , Nagy LG , Gibbons J , Hibbett D |
Ref : Genome Biol Evol , 10 :3250 , 2018 |
Abstract : |
PubMedSearch : Wu_2018_Genome.Biol.Evol_10_3250 |
PubMedID: 30398645 |
Gene_locus related to this paper: 9aphy-a0a5c2t2q2 |
Title : Comparative genomics and transcriptomics depict ericoid mycorrhizal fungi as versatile saprotrophs and plant mutualists - Martino_2018_New.Phytol_217_1213 |
Author(s) : Martino E , Morin E , Grelet GA , Kuo A , Kohler A , Daghino S , Barry KW , Cichocki N , Clum A , Dockter RB , Hainaut M , Kuo RC , LaButti K , Lindahl BD , Lindquist EA , Lipzen A , Khouja HR , Magnuson J , Murat C , Ohm RA , Singer SW , Spatafora JW , Wang M , Veneault-Fourrey C , Henrissat B , Grigoriev IV , Martin FM , Perotto S |
Ref : New Phytol , 217 :1213 , 2018 |
Abstract : |
PubMedSearch : Martino_2018_New.Phytol_217_1213 |
PubMedID: 29315638 |
Gene_locus related to this paper: amore-a0a2t3axk4 , amore-a0a2t3avs4 , amore-a0a2t3ay04 , amore-a0a2t3aph0 |
Title : Genome-Wide Analysis of Corynespora cassiicola Leaf Fall Disease Putative Effectors - Lopez_2018_Front.Microbiol_9_276 |
Author(s) : Lopez D , Ribeiro S , Label P , Fumanal B , Venisse JS , Kohler A , de Oliveira RR , LaButti K , Lipzen A , Lail K , Bauer D , Ohm RA , Barry KW , Spatafora J , Grigoriev IV , Martin FM , Pujade-Renaud V |
Ref : Front Microbiol , 9 :276 , 2018 |
Abstract : |
PubMedSearch : Lopez_2018_Front.Microbiol_9_276 |
PubMedID: 29551995 |
Gene_locus related to this paper: corcc-a0a2t2nss3 , corcc-a0a2t2n5c6 , corcc-a0a2t2n3a1 , corcc-a0a2t2p617 , corcc-a0a2t2nt04 , corcc-a0a2t2n262 |
Title : Linking secondary metabolites to gene clusters through genome sequencing of six diverse Aspergillus species - Kjaerbolling_2018_Proc.Natl.Acad.Sci.U.S.A_115_E753 |
Author(s) : Kjaerbolling I , Vesth TC , Frisvad JC , Nybo JL , Theobald S , Kuo A , Bowyer P , Matsuda Y , Mondo S , Lyhne EK , Kogle ME , Clum A , Lipzen A , Salamov A , Ngan CY , Daum C , Chiniquy J , Barry K , LaButti K , Haridas S , Simmons BA , Magnuson JK , Mortensen UH , Larsen TO , Grigoriev IV , Baker SE , Andersen MR |
Ref : Proc Natl Acad Sci U S A , 115 :E753 , 2018 |
Abstract : |
PubMedSearch : Kjaerbolling_2018_Proc.Natl.Acad.Sci.U.S.A_115_E753 |
PubMedID: 29317534 |
Gene_locus related to this paper: 9euro-a0a0f8xhh7 , 9euro-a0a2t5ll04 , aspn1-nvfd |
Title : Characterization of four endophytic fungi as potential consolidated bioprocessing hosts for conversion of lignocellulose into advanced biofuels - Wu_2017_Appl.Microbiol.Biotechnol_101_2603 |
Author(s) : Wu W , Davis RW , Tran-Gyamfi MB , Kuo A , LaButti K , Mihaltcheva S , Hundley H , Chovatia M , Lindquist E , Barry K , Grigoriev IV , Henrissat B , Gladden JM |
Ref : Applied Microbiology & Biotechnology , 101 :2603 , 2017 |
Abstract : |
PubMedSearch : Wu_2017_Appl.Microbiol.Biotechnol_101_2603 |
PubMedID: 28078400 |
Gene_locus related to this paper: 9pezi-a0a1y2u1s8 , 9pezi-a0a1y2x077 , 9pezi-a0a1y2vv92 , 9pezi-a0a1y2txs8 , 9pezi-a0a1y2wzb7 , 9pezi-a0a1y2ufj7 , 9pezi-a0a1y2vvc9 , 9pezi-a0a1y2w3w4 |
Title : Genome expansion and lineage-specific genetic innovations in the forest pathogenic fungi Armillaria - Sipos_2017_Nat.Ecol.Evol_1_1931 |
Author(s) : Sipos G , Prasanna AN , Walter MC , O'Connor E , Balint B , Krizsan K , Kiss B , Hess J , Varga T , Slot J , Riley R , Boka B , Rigling D , Barry K , Lee J , Mihaltcheva S , LaButti K , Lipzen A , Waldron R , Moloney NM , Sperisen C , Kredics L , Vagvolgyi C , Patrignani A , Fitzpatrick D , Nagy I , Doyle S , Anderson JB , Grigoriev IV , Guldener U , Munsterkotter M , Nagy LG |
Ref : Nat Ecol Evol , 1 :1931 , 2017 |
Abstract : |
PubMedSearch : Sipos_2017_Nat.Ecol.Evol_1_1931 |
PubMedID: 29085064 |
Gene_locus related to this paper: armos-armb |
Title : The genome of Xylona heveae provides a window into fungal endophytism - Gazis_2016_Fungal.Biol_120_26 |
Author(s) : Gazis R , Kuo A , Riley R , LaButti K , Lipzen A , Lin J , Amirebrahimi M , Hesse CN , Spatafora JW , Henrissat B , Hainaut M , Grigoriev IV , Hibbett DS |
Ref : Fungal Biol , 120 :26 , 2016 |
Abstract : |
PubMedSearch : Gazis_2016_Fungal.Biol_120_26 |
PubMedID: 26693682 |
Gene_locus related to this paper: 9pezi-a0a165f9w1 , 9pezi-a0a165fsb2 , 9pezi-a0a165gpf2 , 9pezi-a0a164zp96 , xylht-a0a165aju9 , xylht-a0a165jye6 , xylht-a0a165jir4 |
Title : Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage - Mosier_2016_Front.Microbiol_7_238 |
Author(s) : Mosier AC , Miller CS , Frischkorn KR , Ohm RA , Li Z , LaButti K , Lapidus A , Lipzen A , Chen C , Johnson J , Lindquist EA , Pan C , Hettich RL , Grigoriev IV , Singer SW , Banfield JF |
Ref : Front Microbiol , 7 :238 , 2016 |
Abstract : |
PubMedSearch : Mosier_2016_Front.Microbiol_7_238 |
PubMedID: 26973616 |
Gene_locus related to this paper: 9pezi-a0a150vf31 , 9pezi-a0a150uua7 , 9pezi-a0a150uvr8 , 9pezi-a0a150uzg0 , 9pezi-a0a150v0d4 , 9pezi-a0a150v5h7 , 9pezi-a0a150v662 , 9pezi-a0a150v8z3 , 9pezi-a0a150v9v5 , 9pezi-a0a150vc68 , 9pezi-a0a150vcp1 , 9pezi-a0a150vd70 , 9pezi-a0a150vda0 , 9pezi-a0a150vgv5 , 9pezi-a0a150vil1 , 9pezi-a0a150uu68 , 9pezi-a0a150vas8 , 9pezi-a0a150vji1 , 9pezi-a0a150vii2 |
Title : Comparative genomics analysis of Trichoderma reesei strains - Koike_2013_Ind.Biotechnol_9_352 |
Author(s) : Koike H , Aerts A , LaButti K , Grigoriev IV , Baker SE |
Ref : Ind Biotech , 9 :352 , 2013 |
Abstract : |
PubMedSearch : Koike_2013_Ind.Biotechnol_9_352 |
PubMedID: |
Gene_locus related to this paper: hypjr-a0a024s1s9 |
Title : The genome of the xerotolerant mold Wallemia sebi reveals adaptations to osmotic stress and suggests cryptic sexual reproduction - Padamsee_2012_Fungal.Genet.Biol_49_217 |
Author(s) : Padamsee M , Kumar TK , Riley R , Binder M , Boyd A , Calvo AM , Furukawa K , Hesse C , Hohmann S , James TY , LaButti K , Lapidus A , Lindquist E , Lucas S , Miller K , Shantappa S , Grigoriev IV , Hibbett DS , McLaughlin DJ , Spatafora JW , Aime MC |
Ref : Fungal Genet Biol , 49 :217 , 2012 |
Abstract : |
PubMedSearch : Padamsee_2012_Fungal.Genet.Biol_49_217 |
PubMedID: 22326418 |
Gene_locus related to this paper: walsc-i4y6w1 , walmc-i4y5m3 |
Title : Comparative genomics of the white-rot fungi, Phanerochaete carnosa and P. chrysosporium, to elucidate the genetic basis of the distinct wood types they colonize - Suzuki_2012_BMC.Genomics_13_444 |
Author(s) : Suzuki H , MacDonald J , Syed K , Salamov A , Hori C , Aerts A , Henrissat B , Wiebenga A , vanKuyk PA , Barry K , Lindquist E , LaButti K , Lapidus A , Lucas S , Coutinho P , Gong Y , Samejima M , Mahadevan R , Abou-Zaid M , de Vries RP , Igarashi K , Yadav JS , Grigoriev IV , Master ER |
Ref : BMC Genomics , 13 :444 , 2012 |
Abstract : |
PubMedSearch : Suzuki_2012_BMC.Genomics_13_444 |
PubMedID: 22937793 |
Gene_locus related to this paper: phacs-k5whx2 , phacs-k5v2s8 , phacs-k5v5r2 , phacs-k5vyk5 , phacs-k5vzf8 , phacs-k5wbu9 , phacs-k5wc10 , phacs-k5wpw0 , phacs-k5wzn6 , phacs-k5x1t8 , phacs-k5x5g6 , phacs-k5x5p4 |
Title : Permanent draft genome sequence of Dethiosulfovibrio peptidovorans type strain (SEBR 4207) - Labutti_2010_Stand.Genomic.Sci_3_85 |
Author(s) : LaButti K , Mayilraj S , Clum A , Lucas S , Glavina Del Rio T , Nolan M , Tice H , Cheng JF , Pitluck S , Liolios K , Ivanova N , Mavromatis K , Mikhailova N , Pati A , Goodwin L , Chen A , Palaniappan K , Land M , Hauser L , Chang YJ , Jeffries CD , Rohde M , Spring S , Goker M , Woyke T , Bristow J , Eisen JA , Markowitz V , Hugenholtz P , Kyrpides NC , Klenk HP , Lapidus A |
Ref : Stand Genomic Sci , 3 :85 , 2010 |
Abstract : |
PubMedSearch : Labutti_2010_Stand.Genomic.Sci_3_85 |
PubMedID: 21304695 |
Title : Complete genome sequence of Planctomyces limnophilus type strain (Mu 290) - Labutti_2010_Stand.Genomic.Sci_3_47 |
Author(s) : LaButti K , Sikorski J , Schneider S , Nolan M , Lucas S , Glavina Del Rio T , Tice H , Cheng JF , Goodwin L , Pitluck S , Liolios K , Ivanova N , Mavromatis K , Mikhailova N , Pati A , Chen A , Palaniappan K , Land M , Hauser L , Chang YJ , Jeffries CD , Tindall BJ , Rohde M , Goker M , Woyke T , Bristow J , Eisen JA , Markowitz V , Hugenholtz P , Kyrpides NC , Klenk HP , Lapidus A |
Ref : Stand Genomic Sci , 3 :47 , 2010 |
Abstract : |
PubMedSearch : Labutti_2010_Stand.Genomic.Sci_3_47 |
PubMedID: 21304691 |
Gene_locus related to this paper: plal2-d5spy8 , plal2-d5ssg7 , plal2-d5ssq1 , plal2-d5stl8 , plal2-d5su74 , plal2-d5swy9 , plal2-d5sxa1 , plal2-d5sxi9 , plal2-d5swp5 |
Title : Complete genome sequence of Sphaerobacter thermophilus type strain (S 6022) - Pati_2010_Stand.Genomic.Sci_2_49 |
Author(s) : Pati A , LaButti K , Pukall R , Nolan M , Glavina Del Rio T , Tice H , Cheng JF , Lucas S , Chen F , Copeland A , Ivanova N , Mavromatis K , Mikhailova N , Pitluck S , Bruce D , Goodwin L , Land M , Hauser L , Chang YJ , Jeffries CD , Chen A , Palaniappan K , Chain P , Brettin T , Sikorski J , Rohde M , Goker M , Bristow J , Eisen JA , Markowitz V , Hugenholtz P , Kyrpides NC , Klenk HP , Lapidus A |
Ref : Stand Genomic Sci , 2 :49 , 2010 |
Abstract : |
PubMedSearch : Pati_2010_Stand.Genomic.Sci_2_49 |
PubMedID: 21304677 |
Title : Complete genome sequence of Anaerococcus prevotii type strain (PC1) - Labutti_2009_Stand.Genomic.Sci_1_159 |
Author(s) : LaButti K , Pukall R , Steenblock K , Glavina Del Rio T , Tice H , Copeland A , Cheng JF , Lucas S , Chen F , Nolan M , Bruce D , Goodwin L , Pitluck S , Ivanova N , Mavromatis K , Ovchinnikova G , Pati A , Chen A , Palaniappan K , Land M , Hauser L , Chang YJ , Jeffries CD , Chain P , Saunders E , Brettin T , Detter JC , Han C , Goker M , Bristow J , Eisen JA , Markowitz V , Hugenholtz P , Kyrpides NC , Klenk HP , Lapidus A |
Ref : Stand Genomic Sci , 1 :159 , 2009 |
Abstract : |
PubMedSearch : Labutti_2009_Stand.Genomic.Sci_1_159 |
PubMedID: 21304652 |
Gene_locus related to this paper: anapd-c7ri43 |
Title : Human chromosome 11 DNA sequence and analysis including novel gene identification - Taylor_2006_Nature_440_497 |
Author(s) : Taylor TD , Noguchi H , Totoki Y , Toyoda A , Kuroki Y , Dewar K , Lloyd C , Itoh T , Takeda T , Kim DW , She X , Barlow KF , Bloom T , Bruford E , Chang JL , Cuomo CA , Eichler E , Fitzgerald MG , Jaffe DB , LaButti K , Nicol R , Park HS , Seaman C , Sougnez C , Yang X , Zimmer AR , Zody MC , Birren BW , Nusbaum C , Fujiyama A , Hattori M , Rogers J , Lander ES , Sakaki Y |
Ref : Nature , 440 :497 , 2006 |
Abstract : |
PubMedSearch : Taylor_2006_Nature_440_497 |
PubMedID: 16554811 |
Gene_locus related to this paper: human-PRCP |