Search | VHL CLAP/WR-PAHO/WHO

1.

Lineage-specific expansions of TET/JBP genes and a new class of DNA transposons shape fungal genomic and epigenetic landscapes.

Iyer, Lakshminarayan M; Zhang, Dapeng; de Souza, Robson F; Pukkila, Patricia J; Rao, Anjana; Aravind, L.

Proc Natl Acad Sci U S A ; 111(5): 1676-83, 2014 Feb 04.

Article in English | MEDLINE | ID: mdl-24398522

2.

Simultaneous sequencing of oxidized methylcytosines produced by TET/JBP dioxygenases in Coprinopsis cinerea.

Chavez, Lukas; Huang, Yun; Luong, Khai; Agarwal, Suneet; Iyer, Lakshminarayan M; Pastor, William A; Hench, Virginia K; Frazier-Bowers, Sylvia A; Korol, Evgenia; Liu, Shuo; Tahiliani, Mamta; Wang, Yinsheng; Clark, Tyson A; Korlach, Jonas; Pukkila, Patricia J; Aravind, L; Rao, Anjana.

Proc Natl Acad Sci U S A ; 111(48): E5149-58, 2014 Dec 02.

Article in English | MEDLINE | ID: mdl-25406324

3.

5'-Serial Analysis of Gene Expression studies reveal a transcriptomic switch during fruiting body development in Coprinopsis cinerea.

Cheng, Chi Keung; Au, Chun Hang; Wilke, Sarah K; Stajich, Jason E; Zolan, Miriam E; Pukkila, Patricia J; Kwan, Hoi Shan.

BMC Genomics ; 14: 195, 2013 Mar 20.

Article in English | MEDLINE | ID: mdl-23514374

4.

Analysis of the Basidiomycete Coprinopsis cinerea reveals conservation of the core meiotic expression program over half a billion years of evolution.

Burns, Claire; Stajich, Jason E; Rechtsteiner, Andreas; Casselton, Lorna; Hanlon, Sean E; Wilke, Sarah K; Savytskyy, Oleksandr P; Gathman, Allen C; Lilly, Walt W; Lieb, Jason D; Zolan, Miriam E; Pukkila, Patricia J.

PLoS Genet ; 6(9): e1001135, 2010 Sep 23.

Article in English | MEDLINE | ID: mdl-20885784

5.

Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus).

Stajich, Jason E; Wilke, Sarah K; Ahrén, Dag; Au, Chun Hang; Birren, Bruce W; Borodovsky, Mark; Burns, Claire; Canbäck, Björn; Casselton, Lorna A; Cheng, C K; Deng, Jixin; Dietrich, Fred S; Fargo, David C; Farman, Mark L; Gathman, Allen C; Goldberg, Jonathan; Guigó, Roderic; Hoegger, Patrick J; Hooker, James B; Huggins, Ashleigh; James, Timothy Y; Kamada, Takashi; Kilaru, Sreedhar; Kodira, Chinnapa; Kües, Ursula; Kupfer, Doris; Kwan, H S; Lomsadze, Alexandre; Li, Weixi; Lilly, Walt W; Ma, Li-Jun; Mackey, Aaron J; Manning, Gerard; Martin, Francis; Muraguchi, Hajime; Natvig, Donald O; Palmerini, Heather; Ramesh, Marilee A; Rehmeyer, Cathy J; Roe, Bruce A; Shenoy, Narmada; Stanke, Mario; Ter-Hovhannisyan, Vardges; Tunlid, Anders; Velagapudi, Rajesh; Vision, Todd J; Zeng, Qiandong; Zolan, Miriam E; Pukkila, Patricia J.

Proc Natl Acad Sci U S A ; 107(26): 11889-94, 2010 Jun 29.

Article in English | MEDLINE | ID: mdl-20547848

6.

Fluorescent and bimolecular-fluorescent protein tagging of genes at their native loci in Neurospora crassa using specialized double-joint PCR plasmids.

Hammond, Thomas M; Xiao, Hua; Rehard, David G; Boone, Erin C; Perdue, Tony D; Pukkila, Patricia J; Shiu, Patrick K T.

Fungal Genet Biol ; 48(9): 866-73, 2011 Sep.

Article in English | MEDLINE | ID: mdl-21664475

7.

Characterization of interactions between and among components of the meiotic silencing by unpaired DNA machinery in Neurospora crassa using bimolecular fluorescence complementation.

Bardiya, Nirmala; Alexander, William G; Perdue, Tony D; Barry, Edward G; Metzenberg, Robert L; Pukkila, Patricia J; Shiu, Patrick K T.

Genetics ; 178(1): 593-6, 2008 Jan.

Article in English | MEDLINE | ID: mdl-18202398

8.

Meiotic cytogenetics in Coprinus cinereus.

Zolan, Miriam E; Pukkila, Patricia J.

Methods Mol Biol ; 558: 115-27, 2009.

Article in English | MEDLINE | ID: mdl-19685322

9.

DCL-1 colocalizes with other components of the MSUD machinery and is required for silencing.

Alexander, William G; Raju, Namboori B; Xiao, Hua; Hammond, Thomas M; Perdue, Tony D; Metzenberg, Robert L; Pukkila, Patricia J; Shiu, Patrick K T.

Fungal Genet Biol ; 45(5): 719-27, 2008 May.

Article in English | MEDLINE | ID: mdl-18036854

10.

Introducing student inquiry in large introductory genetics classes.

Pukkila, Patricia J.

Genetics ; 166(1): 11-8, 2004 Jan.

Article in English | MEDLINE | ID: mdl-15020401

11.

Strand-Specific RNA-Seq Analyses of Fruiting Body Development in Coprinopsis cinerea.

Muraguchi, Hajime; Umezawa, Kiwamu; Niikura, Mai; Yoshida, Makoto; Kozaki, Toshinori; Ishii, Kazuo; Sakai, Kiyota; Shimizu, Motoyuki; Nakahori, Kiyoshi; Sakamoto, Yuichi; Choi, Cindy; Ngan, Chew Yee; Lindquist, Eika; Lipzen, Anna; Tritt, Andrew; Haridas, Sajeet; Barry, Kerrie; Grigoriev, Igor V; Pukkila, Patricia J.

PLoS One ; 10(10): e0141586, 2015.

Article in English | MEDLINE | ID: mdl-26510163

12.

Novel proteins required for meiotic silencing by unpaired DNA and siRNA generation in Neurospora crassa.

Hammond, Thomas M; Xiao, Hua; Boone, Erin C; Decker, Logan M; Lee, Seung A; Perdue, Tony D; Pukkila, Patricia J; Shiu, Patrick K T.

Genetics ; 194(1): 91-100, 2013 May.

Article in English | MEDLINE | ID: mdl-23502675

13.

SAD-3, a Putative Helicase Required for Meiotic Silencing by Unpaired DNA, Interacts with Other Components of the Silencing Machinery.

Hammond, Thomas M; Xiao, Hua; Boone, Erin C; Perdue, Tony D; Pukkila, Patricia J; Shiu, Patrick K T.

G3 (Bethesda) ; 1(5): 369-76, 2011 Oct.

Article in English | MEDLINE | ID: mdl-22384347

14.

QIP, a protein that converts duplex siRNA into single strands, is required for meiotic silencing by unpaired DNA.

Xiao, Hua; Alexander, William G; Hammond, Thomas M; Boone, Erin C; Perdue, Tony D; Pukkila, Patricia J; Shiu, Patrick K T.

Genetics ; 186(1): 119-26, 2010 Sep.

Article in English | MEDLINE | ID: mdl-20551436

15.

An expanded family of fungalysin extracellular metallopeptidases of Coprinopsis cinerea.

Lilly, Walt W; Stajich, Jason E; Pukkila, Patricia J; Wilke, Sarah K; Inoguchi, Noriko; Gathman, Allen C.

Mycol Res ; 112(Pt 3): 389-98, 2008 Mar.

Article in English | MEDLINE | ID: mdl-18313909

16.

Coprinopsis cinerea.

Pukkila, Patricia J.

Curr Biol ; 21(16): R616-7, 2011 Aug 23.

Article in English | MEDLINE | ID: mdl-21854997

17.

VARIATION IN RIBOSOMAL DNA AMONG BIOLOGICAL SPECIES OF ARMILLARIA, A GENUS OF ROOT-INFECTING FUNGI.

Anderson, James B; Bailey, Steven S; Pukkila, Patricia J.

Evolution ; 43(8): 1652-1662, 1989 Dec.

Article in English | MEDLINE | ID: mdl-28564337

VHL CLAP/WR-PAHO/WHO

Latin-American Center for Perinatology, Woman and Reproductive Health

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