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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
Journal: 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
Journal: 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
Journal: 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
Journal: 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
Journal: 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
Diversity of piRNA expression patterns during the ontogeny of the German cockroach
Journal: 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
Journal: 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
Journal: 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
Journal: iScience, 2020
Alba Ventós-Alfonso, Guillem Ylla, Jose-Carlos Montañes, Xavier Belles, "DNMT1 promotes genome methylation and early embryo development in cockroaches." iScience, 2020. https://linkinghub.elsevier.com/retrieve/pii/S2589004220309755
MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants
Journal: 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
Journal: Biochimica et Biophysica Acta - Gene Regulatory Mechanisms, 2021
José Montañés, Carlos Rojano, Guillem Ylla, Maria Piulachs, José 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
Journal: Agronomy, 2021
Sara Herrera, José 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
Distinct gene expression dynamics in germ line and somatic tissue during ovariole morphogenesis in Drosophila melanogaster
Journal: G3 GenestextbarGenomestextbarGenetics, 2021
Shreeharsha Tarikere, Guillem Ylla, Cassandra Extavour, "Distinct gene expression dynamics in germ line and somatic tissue during ovariole morphogenesis in Drosophila melanogaster." G3 GenestextbarGenomestextbarGenetics, 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
Journal: 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/article/38/12/5491/6373905
Insights into the genomic evolution of insects from cricket genomes
Journal: 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
Genomics and genome editing techniques of crickets, an emerging model insect for biology and food science
Journal: 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.
Two avian Plasmodium species trigger different transcriptional responses on their vector Culex pipiens
Journal: Molecular Ecology, 2023
Marta Garrigós, Guillem Ylla, Josué Puente, Jordi Figuerola, María Ruiz-López, "Two avian Plasmodium species trigger different transcriptional responses on their vector Culex pipiens." Molecular Ecology, 2023. https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.17240
Reduction of embryonic E93 expression as a hypothetical driver of the evolution of insect metamorphosis
Journal: 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
Journal: 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
Dysregulated iron homeostasis in dystrophin-deficient cardiomyocytes: correction by gene editing and pharmacological treatment
Journal: Cardiovascular Research, 2023
Kalina Andrysiak, Gabriela Machaj, Dominik Priesmann, Olga Woźnicka, Alicja Martyniak, Guillem Ylla, Marcus Krüger, Elżbieta Pyza, Anna Potulska-Chromik, Anna Kostera-Pruszczyk, Agnieszka Łoboda, Jacek Stępniewski, Józef Dulak, "Dysregulated iron homeostasis in dystrophin-deficient cardiomyocytes: correction by gene editing and pharmacological treatment." Cardiovascular Research, 2023. https://academic.oup.com/cardiovascres/advance-article/doi/10.1093/cvr/cvad182/7468896
Dysregulated iron homeostasis in dystrophin-deficient cardiomyocytes: correction by gene editing and pharmacological treatment
Journal: Cardiovascular Research, 2024
Kalina Andrysiak, Gabriela Machaj, Dominik Priesmann, Olga Woźnicka, Alicja Martyniak, Guillem Ylla, Marcus Krüger, Elżbieta Pyza, Anna Potulska-Chromik, Anna Kostera-Pruszczyk, Agnieszka Łoboda, Jacek Stępniewski, Józef Dulak, "Dysregulated iron homeostasis in dystrophin-deficient cardiomyocytes: correction by gene editing and pharmacological treatment." Cardiovascular Research, 2024. https://doi.org/10.1093/cvr/cvad182
Insights into the early transcriptomic response against watermelon mosaic virus in melon
Journal: BMC Plant Biology, 2024
María López-Martín, Javier Montero-Pau, Guillem Ylla, María Gómez-Guillamón, Belén Picó, Ana Pérez-de-Castro, "Insights into the early transcriptomic response against watermelon mosaic virus in melon." BMC Plant Biology, 2024. https://doi.org/10.1186/s12870-024-04745-x
The genome assembly and annotation of the cricket Gryllus longicercus
Journal: Scientific Data, 2024
Szymon Szrajer, David Gray, Guillem Ylla, "The genome assembly and annotation of the cricket Gryllus longicercus." Scientific Data, 2024. https://www.nature.com/articles/s41597-024-03554-z
Upregulation of utrophin improves the phenotype of Duchenne muscular dystrophy hiPSC-derived CMs
Journal: Molecular Therapy - Nucleic Acids, 2024
Kalina Andrysiak, Paweł Ferdek, Anna Sanetra, Gabriela Machaj, Luisa Schmidt, Izabela Kraszewska, Katarzyna Sarad, Katarzyna Palus-Chramiec, Olga Lis, Marta Targosz-Korecka, Marcus Krüger, Marian Lewandowski, Guillem Ylla, Jacek Stępniewski, Józef Dulak, "Upregulation of utrophin improves the phenotype of Duchenne muscular dystrophy hiPSC-derived CMs." Molecular Therapy - Nucleic Acids, 2024. https://www.cell.com/molecular-therapy-family/nucleic-acids/abstract/S2162-2531(24)00134-3
talks
The new FBBB’s Laboratory of Bioinformatics and Genome Biology: computational approaches to study genes, genomes, gene regulatory networks
Published:
Small RNAs: when the small rule the bigger
Published:
Comparative genomics of insects to unveil the evolution of gene regulatory networks.
Published:
Cricket genomes: unveiling the genomes of future food.
Published:
Could E93 play the adult specifier role in the embryo?
Published:
Using bioinformatics to unveil the mysteries of animal evolution.
Published:
Using bioinformatics to unveil the mysteries of animal evolution.
Published:
Non-traditional insect models are key for understanding the evolution and regulation of insect metamorphosis
Published:
A novel bioinformatics tool to annotate and analyze piRNAs.
Published:
The transcriptomics of the evolution of insect metamorphosis.
Published:
teaching
AT4BR - Advanced Toolkit for Bioinformatics Research
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Summer semester (February - June) for students of the Jagiellonian University.