| 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 : Pezizomycetes genomes reveal the molecular basis of ectomycorrhizal truffle lifestyle - Murat_2018_Nat.Ecol.Evol_2_1956 |
| Author(s) : Murat C , Payen T , Noel B , Kuo A , Morin E , Chen J , Kohler A , Krizsan K , Balestrini R , Da Silva C , Montanini B , Hainaut M , Levati E , Barry KW , Belfiori B , Cichocki N , Clum A , Dockter RB , Fauchery L , Guy J , Iotti M , Le Tacon F , Lindquist EA , Lipzen A , Malagnac F , Mello A , Molinier V , Miyauchi S , Poulain J , Riccioni C , Rubini A , Sitrit Y , Splivallo R , Traeger S , Wang M , Zifcakova L , Wipf D , Zambonelli A , Paolocci F , Nowrousian M , Ottonello S , Baldrian P , Spatafora JW , Henrissat B , Nagy LG , Aury JM , Wincker P , Grigoriev IV , Bonfante P , Martin FM |
| Ref : Nat Ecol Evol , 2 :1956 , 2018 |
| Abstract : |
| PubMedSearch : Murat_2018_Nat.Ecol.Evol_2_1956 |
| PubMedID: 30420746 |
| Gene_locus related to this paper: 9pezi-a0a3n4l4q5 , 9pezi-a0a3n4lpg7 |
| 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 : 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 : Comparative genomics of biotechnologically important yeasts - Riley_2016_Proc.Natl.Acad.Sci.U.S.A_113_9882 |
| Author(s) : Riley R , Haridas S , Wolfe KH , Lopes MR , Hittinger CT , Goker M , Salamov AA , Wisecaver JH , Long TM , Calvey CH , Aerts AL , Barry KW , Choi C , Clum A , Coughlan AY , Deshpande S , Douglass AP , Hanson SJ , Klenk HP , LaButti KM , Lapidus A , Lindquist EA , Lipzen AM , Meier-Kolthoff JP , Ohm RA , Otillar RP , Pangilinan JL , Peng Y , Rokas A , Rosa CA , Scheuner C , Sibirny AA , Slot JC , Stielow JB , Sun H , Kurtzman CP , Blackwell M , Grigoriev IV , Jeffries TW |
| Ref : Proc Natl Acad Sci U S A , 113 :9882 , 2016 |
| Abstract : |
| PubMedSearch : Riley_2016_Proc.Natl.Acad.Sci.U.S.A_113_9882 |
| PubMedID: 27535936 |
| Gene_locus related to this paper: wicaa-a0a1e3nx95 , cybjn-a0a1e4s739 , 9asco-a0a1q2yku6 , ogapd-w1qjr8 , 9asco-a0a1e3pdp5 , lipst-a0a1e3qdq0 , 9asco-a0a1e4tg55 |
| Title : Phylogenomic Analyses Indicate that Early Fungi Evolved Digesting Cell Walls of Algal Ancestors of Land Plants - Chang_2015_Genome.Biol.Evol_7_1590 |
| Author(s) : Chang Y , Wang S , Sekimoto S , Aerts AL , Choi C , Clum A , LaButti KM , Lindquist EA , Yee Ngan C , Ohm RA , Salamov AA , Grigoriev IV , Spatafora JW , Berbee ML |
| Ref : Genome Biol Evol , 7 :1590 , 2015 |
| Abstract : |
| PubMedSearch : Chang_2015_Genome.Biol.Evol_7_1590 |
| PubMedID: 25977457 |
| Gene_locus related to this paper: gonpr-a0a139axi8 |
| Title : Genome sequencing provides insight into the reproductive biology, nutritional mode and ploidy of the fern pathogen Mixia osmundae - Toome_2014_New.Phytol_202_554 |
| Author(s) : Toome M , Ohm RA , Riley RW , James TY , Lazarus KL , Henrissat B , Albu S , Boyd A , Chow J , Clum A , Heller G , Lipzen A , Nolan M , Sandor L , Zvenigorodsky N , Grigoriev IV , Spatafora JW , Aime MC |
| Ref : New Phytol , 202 :554 , 2014 |
| Abstract : |
| PubMedSearch : Toome_2014_New.Phytol_202_554 |
| PubMedID: 24372469 |
| Gene_locus related to this paper: mixos-g7dyk5 , mixos-g7eay5 |
| Title : Complete genome sequence of Thioalkalivibrio sulfidophilus HL-EbGr7 - Muyzer_2011_Stand.Genomic.Sci_4_23 |
| Author(s) : Muyzer G , Sorokin DY , Mavromatis K , Lapidus A , Clum A , Ivanova N , Pati A , D'Haeseleer P , Woyke T , Kyrpides NC |
| Ref : Stand Genomic Sci , 4 :23 , 2011 |
| Abstract : |
| PubMedSearch : Muyzer_2011_Stand.Genomic.Sci_4_23 |
| PubMedID: 21475584 |
| Gene_locus related to this paper: thish-b8gp07 , thish-b8gpt7 , thish-b8gs68 , thish-b8gu24 , thish-b8guj8 , thish-b8gqw0 |
| Title : Genome sequence of the verrucomicrobium Opitutus terrae PB90-1, an abundant inhabitant of rice paddy soil ecosystems - van Passel_2011_J.Bacteriol_193_2367 |
| Author(s) : van Passel MW , Kant R , Palva A , Copeland A , Lucas S , Lapidus A , Glavina Del Rio T , Pitluck S , Goltsman E , Clum A , Sun H , Schmutz J , Larimer FW , Land ML , Hauser L , Kyrpides N , Mikhailova N , Richardson PP , Janssen PH , de Vos WM , Smidt H |
| Ref : Journal of Bacteriology , 193 :2367 , 2011 |
| Abstract : |
| PubMedSearch : van Passel_2011_J.Bacteriol_193_2367 |
| PubMedID: 21398538 |
| Gene_locus related to this paper: opitp-b1zrm2 |
| Title : Complete genome sequence of Arthrobacter phenanthrenivorans type strain (Sphe3) - Kallimanis_2011_Stand.Genomic.Sci_4_123 |
| Author(s) : Kallimanis A , LaButti KM , Lapidus A , Clum A , Lykidis A , Mavromatis K , Pagani I , Liolios K , Ivanova N , Goodwin L , Pitluck S , Chen A , Palaniappan K , Markowitz V , Bristow J , Velentzas AD , Perisynakis A , Ouzounis CC , Kyrpides NC , Koukkou AI , Drainas C |
| Ref : Stand Genomic Sci , 4 :123 , 2011 |
| Abstract : |
| PubMedSearch : Kallimanis_2011_Stand.Genomic.Sci_4_123 |
| PubMedID: 21677849 |
| Gene_locus related to this paper: artpp-f0m1v4 , artpp-f0m1v5 , artpp-f0m2s7 , artpp-f0m5g1 , artpp-f0m7u7 , artpp-f0m8i0 , artpp-f0m8w6 , artpp-f0m8w7 , artpp-f0m393 , artpp-f0mb51 |
| Title : Comparative genomics of xylose-fermenting fungi for enhanced biofuel production - Wohlbach_2011_Proc.Natl.Acad.Sci.U.S.A_108_13212 |
| Author(s) : Wohlbach DJ , Kuo A , Sato TK , Potts KM , Salamov AA , LaButti KM , Sun H , Clum A , Pangilinan JL , Lindquist EA , Lucas S , Lapidus A , Jin M , Gunawan C , Balan V , Dale BE , Jeffries TW , Zinkel R , Barry KW , Grigoriev IV , Gasch AP |
| Ref : Proc Natl Acad Sci U S A , 108 :13212 , 2011 |
| Abstract : |
| PubMedSearch : Wohlbach_2011_Proc.Natl.Acad.Sci.U.S.A_108_13212 |
| PubMedID: 21788494 |
| Gene_locus related to this paper: cantc-g3b3r0 , spapn-g3ap60 , spapn-g3aif9 , cantc-g3axw7 |
| Title : Complete genome sequence of Cellulomonas flavigena type strain (134) - Abt_2010_Stand.Genomic.Sci_3_15 |
| Author(s) : Abt B , Foster B , Lapidus A , Clum A , Sun H , Pukall R , Lucas S , Glavina Del Rio T , Nolan M , Tice H , Cheng JF , Pitluck S , Liolios K , Ivanova N , Mavromatis K , Ovchinnikova G , Pati A , Goodwin L , Chen A , Palaniappan K , Land M , Hauser L , Chang YJ , Jeffries CD , Rohde M , Goker M , Woyke T , Bristow J , Eisen JA , Markowitz V , Hugenholtz P , Kyrpides NC , Klenk HP |
| Ref : Stand Genomic Sci , 3 :15 , 2010 |
| Abstract : |
| PubMedSearch : Abt_2010_Stand.Genomic.Sci_3_15 |
| PubMedID: 21304688 |
| Gene_locus related to this paper: celfn-d5uif8 , celfn-d5uil9 , celfn-d5ukl6 , celfn-d5ulu1 , celfn-d5ulp3 , celfn-d5ul75 , celfn-d5ufu5 , celfn-d5ugh8 |
| 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 : A genomic perspective on the potential of Actinobacillus succinogenes for industrial succinate production - McKinlay_2010_BMC.Genomics_11_680 |
| Author(s) : McKinlay JB , Laivenieks M , Schindler BD , McKinlay AA , Siddaramappa S , Challacombe JF , Lowry SR , Clum A , Lapidus AL , Burkhart KB , Harkins V , Vieille C |
| Ref : BMC Genomics , 11 :680 , 2010 |
| Abstract : |
| PubMedSearch : McKinlay_2010_BMC.Genomics_11_680 |
| PubMedID: 21118570 |
| Gene_locus related to this paper: actsz-a6vny8 |
| Title : Complete genome sequence of Pirellula staleyi type strain (ATCC 27377) - Clum_2009_Stand.Genomic.Sci_1_308 |
| Author(s) : Clum A , Tindall BJ , Sikorski J , Ivanova N , Mavrommatis K , Lucas S , Glavina T , Del R , Nolan M , Chen F , Tice H , Pitluck S , Cheng JF , Chertkov O , Brettin T , Han C , Detter JC , Kuske C , Bruce D , Goodwin L , Ovchinikova G , Pati A , Mikhailova N , Chen A , Palaniappan K , Land M , Hauser L , Chang YJ , Jeffries CD , Chain P , Rohde M , Goker M , Bristow J , Eisen JA , Markowitz V , Hugenholtz P , Kyrpides NC , Klenk HP , Lapidus A |
| Ref : Stand Genomic Sci , 1 :308 , 2009 |
| Abstract : |
| PubMedSearch : Clum_2009_Stand.Genomic.Sci_1_308 |
| PubMedID: 21304671 |
| Gene_locus related to this paper: pirsd-d2qwf7 , pirsd-d2qya4 , pirsd-d2qyh4 , pirsd-d2qyx7 , pirsd-d2r0n7 , pirsd-d2r1w6 , pirsd-d2r2c5 , pirsd-d2r2f7 , pirsd-d2r3w0 , pirsd-d2r4c3 , pirsd-d2r5t1 , pirsd-d2r9d5 , pirsd-d2r496 , pirsd-d2r881 , pirsd-d2r024 |
| Title : Complete genome sequence of Acidimicrobium ferrooxidans type strain (ICP) - Clum_2009_Stand.Genomic.Sci_1_38 |
| Author(s) : Clum A , Nolan M , Lang E , Glavina Del Rio T , Tice H , Copeland A , Cheng JF , Lucas S , Chen F , Bruce D , Goodwin L , Pitluck S , Ivanova N , Mavrommatis K , Mikhailova N , Pati A , Chen A , Palaniappan K , Goker M , Spring S , Land M , Hauser L , Chang YJ , Jeffries CC , Chain P , Bristow J , Eisen JA , Markowitz V , Hugenholtz P , Kyrpides NC , Klenk HP , Lapidus A |
| Ref : Stand Genomic Sci , 1 :38 , 2009 |
| Abstract : |
| PubMedSearch : Clum_2009_Stand.Genomic.Sci_1_38 |
| PubMedID: 21304635 |
| Gene_locus related to this paper: acifd-c7m0l6 , acifd-c7m0z1 , acifd-c7m1g1 , acifd-c7m1p7 |