#Nanopore

Sophie presented her long-read metagenomics work at ESEB 2022 in Prague

Frederic Delsuc

Aug 16, 2022
1 min

Sophie presented her long-read metagenomics work at ESEB 2022 in Prague

As the last step in her oral presentation marathon, Sophie had the opportunity to present her work on long-read metagenomics and chitinase genes the Congress of the European Society for Evolutionary Biology (ESEB 2022) in Prague (Czech Republic). Sophie's presentation was selected as part of an exciting symposium dedicated to understanding "Microbiomes in the wild: the drivers and evolutionary consequences of microbiome variation". Teullet S.*, Tilak M.-K., Magdeleine A., Sch

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DNA Zoo collaboration yields two new anteater chromosome-scale genomes

Frederic Delsuc

Jun 30, 2022
1 min

DNA Zoo collaboration yields two new anteater chromosome-scale genomes

By teaming up with the DNA Zoo team who generated HiC structural data to upgrade our high-quality hybrid genome assemblies, we are releasing two new chromosome-scale genome assemblies for the giant anteater (Myrmecophaga tridactyla) (https://www.dnazoo.org/post/on-the-shoulders-of-giants) and the southern tamandua (Tamandua tetradactyla) (https://www.dnazoo.org/post/the-ant-hunter). The new chromosome scale assemblies and annotations can be found here: - Giant anteater (https

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Sophie talked metagenomics at the European Meeting for PhD Students in Evolutionary Biology

Frederic Delsuc

May 26, 2022
1 min

Sophie talked metagenomics at the European Meeting for PhD Students in Evolutionary Biology

After two years of online talks, Sophie finally had the opportunity to present in-person the metagenomic part of her PhD project at the 27th European Meeting for PhD Students in Evolutionary Biology (EMPSEB27) in Espoo (Finland) (https://empseb.wordpress.com/). This meeting organized for PhD students by PhD students is sponsored by the European Society for Evolutionary Biology (ESEB) and aims at creating links between fellow European PhD students. A wonderful opportunity for

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New publication by Sophie with members of the Animal Microbiome Research Group

Frederic Delsuc

Feb 12, 2022
1 min

New publication by Sophie with members of the Animal Microbiome Research Group

Following from her participation to the 2nd annual Animal Microbiome Research Group (AMRG) virtual meeting (https://amrg.mystrikingly.com/), Sophie, together with two other fellow early career animal microbiome researchers, participated in the publication of a meeting report in Evolutionary Anthropology. In addition to describing the latest advances in animal microbiome research presented at the meeting, the paper also exposes the actions undertaken to grow and maintain this

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Bye Rémi, so long, and thanks for all the fish!

Frederic Delsuc

Dec 31, 2021
1 min

Bye Rémi, so long, and thanks for all the fish!

After four years within the ConvergeAnt project as a PhD student, then a postdoc, Rémi is moving for new adventures. From the field in French Guiana and South Africa tracking roadkill and anything else alive, to the lab setting up Nanopore long read sequencing, to the computing cluster assembling complex genomes and building and analyzing giant phylogenomic datasets, you mastered it all! Thank you again for everything and congrats for securing a well-deserved permanent resear

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Sophie talked long read metagenomics at the Animal Microbiome Research Group virtual meeting

Frederic Delsuc

Nov 10, 2021
1 min

Sophie talked long read metagenomics at the Animal Microbiome Research Group virtual meeting

Sophie Teullet presented her work on using long read metagenomics to study dietary adaptations in ant-eating mammal at the 2nd annual Animal Microbiome Research Group (AMRG) virtual meeting (https://amrg.mystrikingly.com/). The AMRG is an interdisciplinary and international community of early career scientists interested in using the microbiome as a tool to address fundamental questions in ecology and evolution and provides a research network and platform for early career res

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Portable microbiome metagenomics sequencing in French Guiana

Frederic Delsuc

Nov 2, 2021
1 min

Portable microbiome metagenomics sequencing in French Guiana

After a two-year hiatus because of the COVID-19 pandemic, Frédéric, Lionel, Rémi and Marie-Ka returned to French Guiana in the Pasteur Institute in Cayenne together with Sophie and Mathilde. They spent two weeks the lab of long time collaborator Benoit de Thoisy working on roadkill specimens preserved in the JAGUARS collection (http://kwata.net/la-collection-jaguars-pour-l-etude-de-la-biodiversite.html). This allowed the ConvergeAnt team to perform dissections of roadkill myr

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High molecular weight bacterial DNA extraction protocol from fecal samples shared on Protocols.io

Frederic Delsuc

Jun 27, 2021
1 min

High molecular weight bacterial DNA extraction protocol from fecal samples shared on Protocols.io

We are happy to share our optimized protocol for extracting high molecular weight bacterial DNA from field-collected fecal samples. This protocol has been designed to obtain fecal DNA suitable for long read metagenomic sequencing on the portable MinION instrument enabling field-sequencing of fecal samples. Try it on your own samples! Magdeleine A., Tilak M.-K., Teullet S. & Delsuc F. (2021). High molecular weight bacterial DNA extraction from field-collected fecal samples pre

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Frederic Delsuc

May 20, 2021
1 min

Sophie presented a plenary talk at virtual London Calling 2021

After submitting a poster abstract to present her work on ant-eating mammal microbiomes using long read metagenomics, Sophie Teullet was invited to present a plenary talk at the virtual London Calling 2021 Nanopore conference (https://londoncallingconf.co.uk/lc21). Sophie took up the challenge and her talk entitled "Long-read metagenomic sequencing of faecal samples to study convergent dietary adaptation in ant-eating mammals" can be watch on the video below. Congrats Sophie

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Frederic Delsuc

Oct 14, 2020
1 min

Au revoir Amandine !

After two years of hard bench (and some field) work, Amandine Magdeleine is leaving the ConvergeAnt project. Amandine has been instrumental in producing the ant-eating mammal genomes and transcriptomes of the project and hundreds of ant mitogenomes using Illumina sequencing, but she also processed the hundreds of fecal samples for microbiome sequencing using 16S rRNA and metagenomics with the MinION. Best wishes for your next endeavor Amandine! #Genomics #Microbiomes #Nanopor

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Frederic Delsuc

Feb 4, 2020
1 min

Talk at ALPHY 2020

Rémi presented our results on using roadkill for genome-wide species delimitation in myrmecophagous carnivores at ALPHY 2020, a Bioinformatics and Evolutionary Genomics conference held this year in Lyon (France). He also gave a seminar on the same topic at the LEHNA lab at the University of Lyon the day before the conference. Allio R.*, Tilak M.-K., Avenant N.L., Corre E., Nabholz B. & Delsuc F. (2020). Roadkill genomics: high quality mammalian genomes from hybrid assembly of

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Frederic Delsuc

Jan 11, 2020
1 min

Talk at PAG meeting 2020

Frédéric presented our results on sequencing high quality genomes from roadkill for genome-wide species delimitation in ant-eating carnivorans at the Plant and Animal Genome conference in San Diego, CA, USA (PAG 2020). This annual conference is the "grand messe" of genomics and it was an honor to be selected for a talk this year. Thanks to Elinor Karlsson and Ellie Armstrong for organizing the "Feline and Canine Genomics Workshop". It was also the occasion for Frédéric to vis

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Protocol for sequencing mammalian roadkill tissues with the MinION shared on Protocols.io

Frederic Delsuc

Aug 8, 2019
1 min

Protocol for sequencing mammalian roadkill tissues with the MinION shared on Protocols.io

We are happy to share our optimized protocol for sequencing long reads from mammalian roadkill tissues with the Oxford Nanopore Technology (ONT). This protocol was specifically developed to optimize DNA extraction and sequencing roadkill tissues containing necrotized cells and impurities that result in DNA degradation. First, we observed that DNA preservation was generally better in RNAlater than in 95% EtOH preserved tissues. Second, we found that physically removing necroti

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