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Select item 112266091.

Low-input PacBio sequencing generates high-quality individual fly genomes and characterizes mutational processes

Hangxing Jia, Shengjun Tan, Yingao Cai, Yanyan Guo, Jieyu Shen, Yaqiong Zhang, Huijing Ma, Qingzhu Zhang, Jinfeng Chen, Gexia Qiao, Jue Ruan, Yong E. Zhang

Nat Commun. 2024; 15: 5644. Published online 2024 Jul 5. doi: 10.1038/s41467-024-49992-6

PMCID:: PMC11226609

Abstract Article PDF–23M

Select item 105892552.

Paralog transcriptional differentiation in the D. melanogaster-specific gene family Sdic across populations and spermatogenesis stages

Bryan D. Clifton, Imtiyaz Hariyani, Ashlyn Kimura, Fangning Luo, Alvin Nguyen, José M. Ranz

Commun Biol. 2023; 6: 1069. Published online 2023 Oct 20. doi: 10.1038/s42003-023-05427-4

PMCID:: PMC10589255

Abstract Article PDF–1.0M

Select item 86214063.

On the Origin and Evolution of Drosophila New Genes during Spermatogenesis

Qianwei Su, Huangyi He, Qi Zhou

Genes (Basel) 2021 Nov; 12(11): 1796. Published online 2021 Nov 15. doi: 10.3390/genes12111796

PMCID:: PMC8621406

Abstract Article PDF–2.5M

Select item 74750354.

Understanding the Early Evolutionary Stages of a Tandem Drosophilamelanogaster-Specific Gene Family: A Structural and Functional Population Study

Bryan D Clifton, Jamie Jimenez, Ashlyn Kimura, Zeinab Chahine, Pablo Librado, Alejandro Sánchez-Gracia, Mashya Abbassi, Francisco Carranza, Carolus Chan, Marcella Marchetti, Wanting Zhang, Mijuan Shi, Christine Vu, Shudan Yeh, Laura Fanti, Xiao-Qin Xia, Julio Rozas, José M Ranz

Mol Biol Evol. 2020 Sep; 37(9): 2584–2600. Published online 2020 May 2. doi: 10.1093/molbev/msaa109

PMCID:: PMC7475035

Abstract Article PDF–798K

Select item 64046605.

Rapid Functional and Sequence Differentiation of a Tandemly Repeated Species-Specific Multigene Family in Drosophila

Bryan D. Clifton, Pablo Librado, Shu-Dan Yeh, Edwin S. Solares, Daphne A. Real, Suvini U. Jayasekera, Wanting Zhang, Mijuan Shi, Ronni V. Park, Robert D. Magie, Hsiu-Ching Ma, Xiao-Qin Xia, Antonio Marco, Julio Rozas, José M. Ranz

Mol Biol Evol. 2017 Jan; 34(1): 51–65. Published online 2016 Oct 3. doi: 10.1093/molbev/msw212

PMCID:: PMC6404660

Abstract Article PDF–1023K

Select item 57078056.

Landscape and evolution of tissue-specific alternative polyadenylation across Drosophila species

Piero Sanfilippo, Jiayu Wen, Eric C. Lai

Genome Biol. 2017; 18: 229. Published online 2017 Nov 30. doi: 10.1186/s13059-017-1358-0

PMCID:: PMC5707805

Abstract Article PDF–3.2M

Select item 56890027.

Transcription elongation rate has a tissue-specific impact on alternative cleavage and polyadenylation in Drosophila melanogaster

Xiaochuan Liu, Jaime Freitas, Dinghai Zheng, Marta S. Oliveira, Mainul Hoque, Torcato Martins, Telmo Henriques, Bin Tian, Alexandra Moreira

RNA. 2017 Dec; 23(12): 1807–1816. doi: 10.1261/rna.062661.117

PMCID:: PMC5689002

Abstract Article PDF–4.0M

Select item 47380058.

Proteome-wide dataset supporting the study of ancient metazoan macromolecular complexes

Sadhna Phanse, Cuihong Wan, Blake Borgeson, Fan Tu, Kevin Drew, Greg Clark, Xuejian Xiong, Olga Kagan, Julian Kwan, Alexandr Bezginov, Kyle Chessman, Swati Pal, Graham Cromar, Ophelia Papoulas, Zuyao Ni, Daniel R. Boutz, Snejana Stoilova, Pierre C. Havugimana, Xinghua Guo, Ramy H. Malty, Mihail Sarov, Jack Greenblatt, Mohan Babu, W. Brent Derry, Elisabeth R. Tillier, John B. Wallingford, John Parkinson, Edward M. Marcotte, Andrew Emili

Data Brief. 2016 Mar; 6: 715–721. Published online 2015 Dec 12. doi: 10.1016/j.dib.2015.11.062

PMCID:: PMC4738005

Abstract Article PDF–205K

Select item 46605849.

Diverse Roles of Axonemal Dyneins in Drosophila Auditory Neuron Function and Mechanical Amplification in Hearing

Somdatta Karak, Julie S. Jacobs, Maike Kittelmann, Christian Spalthoff, Radoslaw Katana, Elena Sivan-Loukianova, Michael A. Schon, Maurice J. Kernan, Daniel F. Eberl, Martin C. Göpfert

Sci Rep. 2015; 5: 17085. Published online 2015 Nov 26. doi: 10.1038/srep17085

PMCID:: PMC4660584

Abstract Article PDF–1.0M

Select item 452833010.

Gene Model Annotations for Drosophila melanogaster: The Rule-Benders

Madeline A. Crosby, L. Sian Gramates, Gilberto dos Santos, Beverley B. Matthews, Susan E. St. Pierre, Pinglei Zhou, Andrew J. Schroeder, Kathleen Falls, David B. Emmert, Susan M. Russo, William M. Gelbart, the FlyBase Consortium

G3 (Bethesda) 2015 Aug; 5(8): 1737–1749. Published online 2015 Jun 24. doi: 10.1534/g3.115.018937

PMCID:: PMC4528330

Abstract Article PDF–2.2M

Select item 452832911.

Gene Model Annotations for Drosophila melanogaster: Impact of High-Throughput Data

Beverley B. Matthews, Gilberto dos Santos, Madeline A. Crosby, David B. Emmert, Susan E. St. Pierre, L. Sian Gramates, Pinglei Zhou, Andrew J. Schroeder, Kathleen Falls, Victor Strelets, Susan M. Russo, William M. Gelbart, the FlyBase Consortium

G3 (Bethesda) 2015 Aug; 5(8): 1721–1736. Published online 2015 Jun 24. doi: 10.1534/g3.115.018929

PMCID:: PMC4528329

Abstract Article PDF–4.9M

Select item 435288712.

The Release 6 reference sequence of the Drosophila melanogaster genome

Roger A. Hoskins, Joseph W. Carlson, Kenneth H. Wan, Soo Park, Ivonne Mendez, Samuel E. Galle, Benjamin W. Booth, Barret D. Pfeiffer, Reed A. George, Robert Svirskas, Martin Krzywinski, Jacqueline Schein, Maria Carmela Accardo, Elisabetta Damia, Giovanni Messina, María Méndez-Lago, Beatriz de Pablos, Olga V. Demakova, Evgeniya N. Andreyeva, Lidiya V. Boldyreva, Marco Marra, A. Bernardo Carvalho, Patrizio Dimitri, Alfredo Villasante, Igor F. Zhimulev, Gerald M. Rubin, Gary H. Karpen, Susan E. Celniker

Genome Res. 2015 Mar; 25(3): 445–458. doi: 10.1101/gr.185579.114

PMCID:: PMC4352887

Abstract Article PDF–1022K

Select item 427119613.

The Drosophila Tis11 Protein and Its Effects on mRNA Expression in Flies

Youn-Jeong Choi, Wi S. Lai, Robert Fedic, Deborah J. Stumpo, Weichun Huang, Leping Li, Lalith Perera, Brandy Y. Brewer, Gerald M. Wilson, James M. Mason, Perry J. Blackshear

J Biol Chem. 2014 Dec 19; 289(51): 35042–35060. Published online 2014 Oct 23. doi: 10.1074/jbc.M114.593491

PMCID:: PMC4271196

Abstract Article PDF–3.9M

Select item 350220814.

Functional relevance of the newly evolved sperm dynein intermediate chain multigene family in Drosophila melanogaster males

Shu-Dan Yeh, Tiffanie Do, Mashya Abbassi, José M. Ranz

Commun Integr Biol. 2012 Sep 1; 5(5): 462–465. doi: 10.4161/cib.21136

PMCID:: PMC3502208

Abstract Article PDF–505K

Select item 346946715.

The Many Landscapes of Recombination in Drosophila melanogaster

Josep M. Comeron, Ramesh Ratnappan, Samuel Bailin

PLoS Genet. 2012 Oct; 8(10): e1002905. Published online 2012 Oct 11. doi: 10.1371/journal.pgen.1002905

PMCID:: PMC3469467

Abstract Article PDF–1.6M

Select item 346944316.

Drosophila sperm proteome evolution: Insights from comparative genomic approaches

Elaine C. Rettie, Steve Dorus

Spermatogenesis. 2012 Jul 1; 2(3): 213–223. doi: 10.4161/spmg.21748

PMCID:: PMC3469443

Abstract Article PDF–782K

Select item 327754317.

Functional evidence that a recently evolved Drosophila sperm-specific gene boosts sperm competition

Shu-Dan Yeh, Tiffanie Do, Carolus Chan, Adriana Cordova, Francisco Carranza, Eugene A. Yamamoto, Mashya Abbassi, Kania A. Gandasetiawan, Pablo Librado, Elisabetta Damia, Patrizio Dimitri, Julio Rozas, Daniel L. Hartl, John Roote, José M. Ranz

Proc Natl Acad Sci U S A. 2012 Feb 7; 109(6): 2043–2048. Published online 2012 Jan 23. doi: 10.1073/pnas.1121327109

PMCID:: PMC3277543

Abstract Article PDF–458K

Select item 306104218.

Drosophila Ras/MAPK signalling regulates innate immune responses in immune and intestinal stem cells

Anan Ragab, Tina Buechling, Viola Gesellchen, Kerstin Spirohn, Anna-Lisa Boettcher, Michael Boutros

EMBO J. 2011 Mar 16; 30(6): 1123–1136. Published online 2011 Feb 4. doi: 10.1038/emboj.2011.4

PMCID:: PMC3061042

Abstract Article PDF–1.8M

Select item 282505319.

Sequence Finishing and Mapping of Drosophila melanogaster Heterochromatin

Roger A. Hoskins, Joseph W. Carlson, Cameron Kennedy, David Acevedo, Martha Evans-Holm, Erwin Frise, Kenneth H. Wan, Soo Park, Maria Mendez-Lago, Fabrizio Rossi, Alfredo Villasante, Patrizio Dimitri, Gary H. Karpen, Susan E. Celniker

Science. Author manuscript; available in PMC 2010 Feb 19.

Published in final edited form as: Science. 2007 Jun 15; 316(5831): 1625–1628. doi: 10.1126/science.1139816

PMCID:: PMC2825053

Abstract Article PDF–858K

Select item 281928020.

The Release 5.1 Annotation of Drosophila melanogaster Heterochromatin

Christopher D. Smith, ShengQiang Shu, Christopher J. Mungall, Gary H. Karpen

Science. Author manuscript; available in PMC 2010 Feb 10.

Published in final edited form as: Science. 2007 Jun 15; 316(5831): 1586. doi: 10.1126/science.1139815

Correction in:: volume 317 on page 1325

PMCID:: PMC2819280

Abstract Article PDF–1.3M

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