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Laboratory of Bioinformatics and Genome Biology
About The Lab:
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Posts
News outlets featuring our E93 paper
Published:
Our recent publication in PNAS about the role of E93 in the embryo as key payer on the evolution of insect metamorphosis has been featured in different news outlets in Poland and Spain. Here are some of them.
New grant!!
Published:
We have been awarded a SONATA 17 grant of 1.3M PLN from the National Science Centre to undertake a project on the evolution and functional roles of piRNAs.
In the faculty Newsletter: Nowa wydziałowa pracownia
Published:
The Newsletter of the Faculty of Bichemistry, Biophysics and Biotechnology announces the opening of out laboratory on Bioinformatics and Genome Biology. Link to the news in Polish
Hello World!
Published:
Hello world!
portfolio
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publications
Towards understanding the molecular basis of cockroach tergal gland morphogenesis. A transcriptomic approach
Published in Insect Biochemistry and Molecular Biology, 2015
Xavier Belles, Guillem Ylla, "Towards understanding the molecular basis of cockroach tergal gland morphogenesis. A transcriptomic approach." Insect Biochemistry and Molecular Biology, 2015. http://www.sciencedirect.com/science/article/pii/S0965174815300114
The microRNA toolkit of insects
Published in Scientific Reports, 2016
Guillem Ylla, Bastian Fromm, Maria Piulachs, Xavier Belles, "The microRNA toolkit of insects." Scientific Reports, 2016.
Comparative analysis of miRNA expression during the development of insects of different metamorphosis modes and germ-band types
Published in BMC Genomics, 2017
Guillem Ylla, Maria Piulachs, Xavier Belles, "Comparative analysis of miRNA expression during the development of insects of different metamorphosis modes and germ-band types." BMC Genomics, 2017. https://doi.org/10.1186/s12864-017-4177-5
Hemimetabolous genomes reveal molecular basis of termite eusociality
Published in Nature Ecology and Evolution, 2018
Mark Harrison, Evelien Jongepier, Hugh Robertson, Nicolas Arning, Tristan Bitard-Feildel, Hsu Chao, Christopher Childers, Huyen Dinh, Harshavardhan Doddapaneni, Shannon Dugan, Johannes Gowin, Carolin Greiner, Yi Han, Haofu Hu, Daniel Hughes, Ann Huylmans, Carsten Kemena, Lukas Kremer, Sandra Lee, Alberto Lopez-Ezquerra, Ludovic Mallet, Jose Monroy-Kuhn, Annabell Moser, Shwetha Murali, Donna Muzny, Saria Otani, Maria Piulachs, Monica Poelchau, Jiaxin Qu, Florentine Schaub, Ayako Wada-Katsumata, Kim Worley, Qiaolin Xie, Guillem Ylla, Michael Poulsen, Richard Gibbs, Coby Schal, Stephen Richards, Xavier Belles, Judith Korb, Erich Bornberg-Bauer, "Hemimetabolous genomes reveal molecular basis of termite eusociality." Nature Ecology and Evolution, 2018.
Comparative transcriptomics in two extreme neopterans reveal general trends in the evolution of modern insects
Published in iScience, 2018
Guillem Ylla, Maria-Dolors Piulachs, Xavier Belles, "Comparative transcriptomics in two extreme neopterans reveal general trends in the evolution of modern insects." iScience, 2018. https://linkinghub.elsevier.com/retrieve/pii/S2589004218300725 http://linkinghub.elsevier.com/retrieve/pii/S2589004218300725
Diversity of piRNA expression patterns during the ontogeny of the German cockroach
Published in Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 2018
Natalia Llonga, Guillem Ylla, Josep Bau, Xavier Belles, Maria Piulachs, "Diversity of piRNA expression patterns during the ontogeny of the German cockroach." Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 2018. http://doi.wiley.com/10.1002/jez.b.22815
Expansions of key protein families in the German cockroach highlight the molecular basis of its remarkable success as a global indoor pest
Published in Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 2018
Mark Harrison, Nicolas Arning, Lukas Kremer, Guillem Ylla, Xavier Belles, Erich Bornberg-Bauer, Ann Huylmans, Evelien Jongepier, Maria Piulachs, Stephen Richards, Coby Schal, "Expansions of key protein families in the German cockroach highlight the molecular basis of its remarkable success as a global indoor pest." Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 2018. http://doi.wiley.com/10.1002/jez.b.22824
Zelda and the maternal-to-zygotic transition in cockroaches
Published in FEBS Journal, 2019
Alba Ventos-Alfonso, Guillem Ylla, Xavier Belles, "Zelda and the maternal-to-zygotic transition in cockroaches." FEBS Journal, 2019. https://onlinelibrary.wiley.com/doi/abs/10.1111/febs.14856
DNMT1 Promotes Genome Methylation and Early Embryo Development in Cockroaches
Published in iScience, 2020
Alba Vento-Alfonso, Guillem Ylla, Jose-Carlos Montanes, Xavier Belles, "DNMT1 Promotes Genome Methylation and Early Embryo Development in Cockroaches." iScience, 2020.
MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants
Published in Bioinformatics, 2020
Guillem Ylla, Tianyuan Liu, Ana Conesa, "MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants." Bioinformatics, 2020. https://academic.oup.com/bioinformatics/article/36/Supplement_2/i618/6055935
siRNA enrichment in Argonaute 2-depleted Blattella germanica
Published in Biochimica et Biophysica Acta - Gene Regulatory Mechanisms, 2021
Jose Montanes, Carlos Rojano, Guillem Ylla, Maria Piulachs, Jose Maestro, "siRNA enrichment in Argonaute 2-depleted Blattella germanica." Biochimica et Biophysica Acta - Gene Regulatory Mechanisms, 2021. https://linkinghub.elsevier.com/retrieve/pii/S1874939921000225
Molecular characterization of genetic diversity in apricot cultivars: Current situation and future perspectives
Published in Agronomy, 2021
Sara Herrera, Jose Hormaza, Jorge Lora, Guillem Ylla, Javier Rodrigo, "Molecular characterization of genetic diversity in apricot cultivars: Current situation and future perspectives." Agronomy, 2021. https://www.mdpi.com/2073-4395/11/9/1714/htm https://www.mdpi.com/2073-4395/11/9/1714
Distinct gene expression dynamics in germ line and somatic tissue during ovariole morphogenesis in Drosophila melanogaster
Published in G3 Genes|Genomes|Genetics, 2021
Shreeharsha Tarikere, Guillem Ylla, Cassandra Extavour, "Distinct gene expression dynamics in germ line and somatic tissue during ovariole morphogenesis in Drosophila melanogaster." G3 Genes|Genomes|Genetics, 2021. https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkab305/6364899
Evolution of a cytoplasmic determinant: evidence for the biochemical basis of functional evolution of the novel germ line regulator oskar
Published in Molecular Biology and Evolution, 2021
Leo Blondel, Savandara Besse, Emily Rivard, Guillem Ylla, Cassandra Extavour, "Evolution of a cytoplasmic determinant: evidence for the biochemical basis of functional evolution of the novel germ line regulator oskar." Molecular Biology and Evolution, 2021. https://academic.oup.com/mbe/advance-article/doi/10.1093/molbev/msab284/6373905
Insights into the genomic evolution of insects from cricket genomes
Published in Communications Biology, 2021
Guillem Ylla, Taro Nakamura, Takehiko Itoh, Rei Kajitani, Atsushi Toyoda, Sayuri Tomonari, Tetsuya Bando, Yoshiyasu Ishimaru, Takahito Watanabe, Masao Fuketa, Yuji Matsuoka, Austen Barnett, Sumihare Noji, Taro Mito, Cassandra Extavour, "Insights into the genomic evolution of insects from cricket genomes." Communications Biology, 2021. http://www.nature.com/articles/s42003-021-02197-9
Cricket: The third domesticated insect
Published in Current Topics in Developmental Biology, 2022
Taro Mito, Yoshiyasu Ishimaru, Takahito Watanabe, Taro Nakamura, Guillem Ylla, Sumihare Noji, Cassandra Extavour, "Cricket: The third domesticated insect." Current Topics in Developmental Biology, 2022. https://linkinghub.elsevier.com/retrieve/pii/S0070215322000096
Genomics and genome editing techniques of crickets, an emerging model insect for biology and food science
Published in Current Opinion in Insect Science, 2022
Taro Nakamura, Guillem Ylla, Cassandra Extavour, "Genomics and genome editing techniques of crickets, an emerging model insect for biology and food science." Current Opinion in Insect Science, 2022.
Reduction of embryonic E93 expression as a hypothetical driver of the evolution of insect metamorphosis
Published in Proceedings of the National Academy of Sciences, 2023
Ana Fernandez-Nicolas, Gabriela Machaj, Alba Ventos-Alfonso, Viviana Pagone, Toshinori Minemura, Takahiro Ohde, Takaaki Daimon, Guillem Ylla, Xavier Belles, "Reduction of embryonic E93 expression as a hypothetical driver of the evolution of insect metamorphosis." Proceedings of the National Academy of Sciences, 2023. https://www.pnas.org/doi/abs/10.1073/pnas.2216640120
oskar acts with the transcription factor Creb to regulate long-term memory in crickets
Published in Proceedings of the National Academy of Sciences, 2023
Arpita Kulkarni, Ben Ewen-Campen, Kanta Terao, Yukihisa Matsumoto, Yaolong Li, Takayuki Watanabe, Jonchee Kao, Swapnil Parhad, Guillem Ylla, Makoto Mizunami, Cassandra Extavour, "oskar acts with the transcription factor Creb to regulate long-term memory in crickets." Proceedings of the National Academy of Sciences, 2023. https://www.pnas.org/doi/10.1073/pnas.2218506120
talks
teaching
Advanced Toolkit for Bioinformatics Research
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Course starting on March 2024, for students of the Jagiellonian University.