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Research: Transcriptional programs mediating neuronal toxicity and altered glial–neuronal signaling in a Drosophila knock-in tauopathy model
- Hassan Bukhari,
- Vanitha Nithianandam,
- Rachel A. Battaglia,
- Anthony Cicalo,
- Souvarish Sarkar,
- Aram Comjean,
- Yanhui Hu,
- Matthew J. Leventhal,
- Xianjun Dong,
- and Mel B. Feany
Genome Res. April 2024 34: 590-605; Published in Advance April 10, 2024, doi:10.1101/gr.278576.123
...Transcriptional programs mediating neuronal toxicity and altered glial–neuronal signaling in a Drosophila knock-in tauopathy model Hassan Bukhari1,2, Vanitha Nithianandam1,2, Rachel A. Battaglia1,2, Anthony Cicalo2,3,4, Souvarish Sarkar1, Aram Comjean5, Yanhui Hu5, Matthew J. Leventhal6,7, Xianjun...
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Research: The Chinese longsnout catfish genome provides novel insights into the feeding preference and corresponding metabolic strategy of carnivores
- Yulong Liu,
- Gang Zhai,
- Jingzhi Su,
- Yulong Gong,
- Bingyuan Yang,
- Qisheng Lu,
- Longwei Xi,
- Yutong Zheng,
- Jingyue Cao,
- Haokun Liu,
- Junyan Jin,
- Zhimin Zhang,
- Yunxia Yang,
- Xiaoming Zhu,
- Zhongwei Wang,
- Gaorui Gong,
- Jie Mei,
- Zhan Yin,
- Rodolphe E. Gozlan,
- Shouqi Xie,
- and Dong Han
Genome Res. July 2024 34: 981-996; Published in Advance August 9, 2024, doi:10.1101/gr.278476.123
...and Beauchamp 2007). In mammals, the taste receptors of the TAS1Rs have been reported to be highly sensitive to nutrients such as protein and amino acids (Nelson et al. 2002). In addition, the evolutionarily conserved microRNA (miR-263b) has been suggested to play a key role in the sensory system of Drosophila...
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Research: Transposon expression in the Drosophila brain is driven by neighboring genes and diversifies the neural transcriptome
- Christoph D. Treiber and
- Scott Waddell
Genome Res. November 2020 30: 1559-1569; Published in Advance September 24, 2020, doi:10.1101/gr.259200.119
...single-cell RNA-seq (scRNA-seq) to map transposon expression to individual cells in the Drosophila midbrain. Combining these data with high-coverage genomic DNA (gDNA) sequencing of the same inbred fly strain permitted neural transposon expression to be correlated with that of genes within which...
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12 Drosophila Genomes/Letter: Revisiting the protein-coding gene catalog of Drosophila melanogaster using 12 fly genomes
- Michael F. Lin,
- Joseph W. Carlson,
- Madeline A. Crosby,
- Beverley B. Matthews,
- Charles Yu,
- Soo Park,
- Kenneth H. Wan,
- Andrew J. Schroeder,
- L. Sian Gramates,
- Susan E. St. Pierre,
- Margaret Roark,
- Kenneth L. Wiley, Jr.,
- Rob J. Kulathinal,
- Peili Zhang,
- Kyl V. Myrick,
- Jerry V. Antone,
- Susan E. Celniker,
- William M. Gelbart,
- and Manolis Kellis
Genome Res. December 2007 17: 1823-1836; Published in Advance November 7, 2007, doi:10.1101/gr.6679507
...Revisiting the protein-coding gene catalog of Drosophila melanogaster using 12 fly genomes Michael F. Lin 1 , Joseph W. Carlson 2 , Madeline A. Crosby 3 , Beverley B. Matthews 3 , Charles Yu 2 , Soo Park 2 , Kenneth H. Wan 2...
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LETTER: Genomics, transcriptomics, and peptidomics of neuropeptides and protein hormones in the red flour beetle Tribolium castaneum
- Bin Li,
- Reinhard Predel,
- Susanne Neupert,
- Frank Hauser,
- Yoshiaki Tanaka,
- Giuseppe Cazzamali,
- Michael Williamson,
- Yasuyuki Arakane,
- Peter Verleyen,
- Liliane Schoofs,
- Joachim Schachtner,
- Cornelis J.P. Grimmelikhuijzen,
- and Yoonseong Park
Genome Res. January 2008 18: 113-122; Published in Advance November 19, 2007, doi:10.1101/gr.6714008
...and the honey bee Apis mellifera . Prog. Neurobiol. 80 : 1 – 19 . ↵ Hauser, F. , Williamson, M. , Cazzamali, G. , Grimmelikhuijzen, C.J.P. ( 2006b ) Identifying neuropeptide and protein hormone receptors in Drosophila melanogaster by exploiting genomic data . Brief. Funct. Genom. Proteom. 4 : 321 – 330...
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LETTER: Molecular Cloning, Genomic Organization, Developmental Regulation, and a Knock-out Mutant of a Novel Leu-rich Repeats-containing G Protein-coupled Receptor (DLGR-2) from Drosophila melanogaster
- Kathrine Krageskov Eriksen,
- Frank Hauser,
- Morten Schiøtt,
- Karen-Marie Pedersen,
- Leif Søndergaard,
- and Cornelis J.P. Grimmelikhuijzen
Genome Res. July 1, 2000 10: 924-938; doi:10.1101/gr.10.7.924
...Molecular Cloning, Genomic Organization, Developmental Regulation, and a Knock-out Mutant of a Novel Leu-rich Repeats-containing G Protein-coupled Receptor (DLGR-2) from Drosophila melanogaster Kathrine Krageskov Eriksen 1 , Frank Hauser 1 , 3 , Morten Schiøtt 2...
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Research: The genome of the leaf-cutting ant Acromyrmex echinatior suggests key adaptations to advanced social life and fungus farming
- Sanne Nygaard,
- Guojie Zhang,
- Morten Schiøtt,
- Cai Li,
- Yannick Wurm,
- Haofu Hu,
- Jiajian Zhou,
- Lu Ji,
- Feng Qiu,
- Morten Rasmussen,
- Hailin Pan,
- Frank Hauser,
- Anders Krogh,
- Cornelis J.P. Grimmelikhuijzen,
- Jun Wang,
- and Jacobus J. Boomsma
Genome Res. August 2011 21: 1339-1348; Published in Advance June 30, 2011, doi:10.1101/gr.121392.111
.... invicta, C. floridanus, and H. saltator, as well as to the more distantly related honeybee (Apis mellifera), parasitoid wasp (Nasonia vitripennis), and fruit fly (Drosophila melanogaster). For each , we assigned gene function (see Methods), followed by gene clustering across all species. This generated 11...
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LETTER: The amphioxus genome illuminates vertebrate origins and cephalochordate biology
- Linda Z. Holland,
- Ricard Albalat,
- Kaoru Azumi,
- Èlia Benito-Gutiérrez,
- Matthew J. Blow,
- Marianne Bronner-Fraser,
- Frederic Brunet,
- Thomas Butts,
- Simona Candiani,
- Larry J. Dishaw,
- David E.K. Ferrier,
- Jordi Garcia-Fernàndez,
- Jeremy J. Gibson-Brown,
- Carmela Gissi,
- Adam Godzik,
- Finn Hallböök,
- Dan Hirose,
- Kazuyoshi Hosomichi,
- Tetsuro Ikuta,
- Hidetoshi Inoko,
- Masanori Kasahara,
- Jun Kasamatsu,
- Takeshi Kawashima,
- Ayuko Kimura,
- Masaaki Kobayashi,
- Zbynek Kozmik,
- Kaoru Kubokawa,
- Vincent Laudet,
- Gary W. Litman,
- Alice C. McHardy,
- Daniel Meulemans,
- Masaru Nonaka,
- Robert P. Olinski,
- Zeev Pancer,
- Len A. Pennacchio,
- Mario Pestarino,
- Jonathan P. Rast,
- Isidore Rigoutsos,
- Marc Robinson-Rechavi,
- Graeme Roch,
- Hidetoshi Saiga,
- Yasunori Sasakura,
- Masanobu Satake,
- Yutaka Satou,
- Michael Schubert,
- Nancy Sherwood,
- Takashi Shiina,
- Naohito Takatori,
- Javier Tello,
- Pavel Vopalensky,
- Shuichi Wada,
- Anlong Xu,
- Yuzhen Ye,
- Keita Yoshida,
- Fumiko Yoshizaki,
- Jr-Kai Yu,
- Qing Zhang,
- Christian M. Zmasek,
- Pieter J. de Jong,
- Kazutoyo Osoegawa,
- Nicholas H. Putnam,
- Daniel S. Rokhsar,
- Noriyuki Satoh,
- and Peter W.H. Holland
Genome Res. July 2008 18: 1100-1111; Published in Advance June 18, 2008, doi:10.1101/gr.073676.107
.... However, since this receptor is also structurally related to the diuretic hormone receptor in Drosophila ( Hauser et al. 2006 ), functional studies will be required to determine whether or not it functions in the stress pathway in amphioxus. In summary, the cortisol pathway most likely did not exist...
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LETTER: Ancient Genome Duplications Did Not Structure the Human Hox-Bearing Chromosomes
- Austin L. Hughes,
- Jack da Silva,
- and Robert Friedman
Genome Res. May 1, 2001 11: 771-780; Published in Advance April 11, 2001, doi:10.1101/gr.160001
...sapiens ), mouse ( Mus musculus ), chicken ( Gallus gallus ), clawed frog ( Xenopus laevis ), goldfish ( Carassius auratus ); Insecta: Drosophila melanogaster ; Nematoda: Caenorhabditis elegans ; Plantae: Arabidopsis thaliana , rice ( Oryza sativa ); Fungi: yeast ( Saccharomyces cerevisiae...
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LETTER: The Binding Sites for the Chromatin Insulator Protein CTCF Map to DNA Methylation-Free Domains Genome-Wide
- Rituparna Mukhopadhyay,
- WenQiang Yu,
- Joanne Whitehead,
- JunWang Xu,
- Magda Lezcano,
- Svetlana Pack,
- Chandrasekhar Kanduri,
- Meena Kanduri,
- Vasudeva Ginjala,
- Alexander Vostrov,
- Wolfgang Quitschke,
- Igor Chernukhin,
- Elena Klenova,
- Victor Lobanenkov,
- and Rolf Ohlsson
Genome Res. August 2004 14: 1594-1602; Published in Advance July 15, 2004, doi:10.1101/gr.2408304
...in Drosophila melanogaster and its gene. Mol. Cell Biol. 6 : 3862 –3872. ↵ Kanduri, C., Holmgren, C., Franklin, G., Pilartz, M., Ullerås, E., Kanduri, M., Liu, L., Ginjala, V., Ulleras, E., Mattsson, R., et al. 2000a . The 5'-flank of the murine H19 gene in an unusual chromatin conformation unidirectionally...

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