Osiel Gonçalves 💻🧬🧪🌱🍄
@microevo.bsky.social
Pos-Doc | USP | Microbe Ecology and Evolution | Bioinformatics | Genomic | Plant Microbe | He/Him/His 🏳️🌈
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
We did it! We caught Starship #transposons moving between #fungal species in the lab, including between species separated by ~100my. We think Starships are a mediator of HGT in fungi, akin to conjugative elements in bacteria. Check out the preprint. www.biorxiv.org/content/10.1...
March 7, 2025 at 7:18 AM
We did it! We caught Starship #transposons moving between #fungal species in the lab, including between species separated by ~100my. We think Starships are a mediator of HGT in fungi, akin to conjugative elements in bacteria. Check out the preprint. www.biorxiv.org/content/10.1...
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
VITAP: a high precision tool for DNA and RNA viral classification based on meta-omic data www.nature.com/articles/s41... #jcampubs
VITAP: a high precision tool for DNA and RNA viral classification based on meta-omic data - Nature Communications
High-throughput sequencing retrieves viral sequences from diverse environments, but these sequences can be difficult to classify. The here developed VITAP is a taxonomic assignment pipeline for DNA an...
www.nature.com
March 6, 2025 at 2:24 PM
VITAP: a high precision tool for DNA and RNA viral classification based on meta-omic data www.nature.com/articles/s41... #jcampubs
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
Out now in @nature.com: Gut microbiome diversity across African populations - a valuable resource for further research and foundational for global health equity. 🧪
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Expanding the human gut microbiome atlas of Africa - Nature
A cross-sectional study from four African countries shows the importance of investigating the gut microbiome in previously under-represented populations and provides a framework for equitable microbio...
www.nature.com
January 30, 2025 at 3:21 PM
Out now in @nature.com: Gut microbiome diversity across African populations - a valuable resource for further research and foundational for global health equity. 🧪
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
DFAST_QC: quality assessment and taxonomic identification tool for prokaryotic Genomes bmcbioinformatics.biomedcentral.com/articles/10.... #jcampubs
DFAST_QC: quality assessment and taxonomic identification tool for prokaryotic Genomes - BMC Bioinformatics
Background Accurate taxonomic classification in genome databases is essential for reliable biological research and effective data sharing. Mislabeling or inaccuracies in genome annotations can lead to...
bmcbioinformatics.biomedcentral.com
January 9, 2025 at 3:29 PM
DFAST_QC: quality assessment and taxonomic identification tool for prokaryotic Genomes bmcbioinformatics.biomedcentral.com/articles/10.... #jcampubs
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
Our review is out in Nature Reviews Genetics! rdcu.be/d5AY2
We show how phylogeny-based methods can resolve the problem of non-independence in genomic datasets.
These methods must be considered an essential part of the comparative genomics toolkit.
@lauriebelch.bsky.social @stuwest.bsky.social
We show how phylogeny-based methods can resolve the problem of non-independence in genomic datasets.
These methods must be considered an essential part of the comparative genomics toolkit.
@lauriebelch.bsky.social @stuwest.bsky.social
A phylogenetic approach to comparative genomics
Nature Reviews Genetics - Controlling for phylogeny is essential in comparative genomics studies, because species, genomes and genes are not independent data points within statistical tests. The...
rdcu.be
January 8, 2025 at 1:19 PM
Our review is out in Nature Reviews Genetics! rdcu.be/d5AY2
We show how phylogeny-based methods can resolve the problem of non-independence in genomic datasets.
These methods must be considered an essential part of the comparative genomics toolkit.
@lauriebelch.bsky.social @stuwest.bsky.social
We show how phylogeny-based methods can resolve the problem of non-independence in genomic datasets.
These methods must be considered an essential part of the comparative genomics toolkit.
@lauriebelch.bsky.social @stuwest.bsky.social
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
OUT NOW: Mapping the metagenomic diversity of the multi-kingdom glacier-fed stream microbiome
by Gregoire Michoud, Tom Battin & co
www.nature.com/articles/s41...
by Gregoire Michoud, Tom Battin & co
www.nature.com/articles/s41...
Mapping the metagenomic diversity of the multi-kingdom glacier-fed stream microbiome - Nature Microbiology
Thousands of metagenome-assembled genomes from the Vanishing Glaciers project showcase the interactions between prokaryotes, algae, fungi and viruses in glacier-fed stream environments.
www.nature.com
January 2, 2025 at 5:26 PM
OUT NOW: Mapping the metagenomic diversity of the multi-kingdom glacier-fed stream microbiome
by Gregoire Michoud, Tom Battin & co
www.nature.com/articles/s41...
by Gregoire Michoud, Tom Battin & co
www.nature.com/articles/s41...
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
OUT NOW: Evolutionary origins of archaeal and eukaryotic RNA-guided RNA modification in bacterial IS110 transposons
by Samuel Sternberg, @audeber.bsky.social & co
www.nature.com/articles/s41...
by Samuel Sternberg, @audeber.bsky.social & co
www.nature.com/articles/s41...
Evolutionary origins of archaeal and eukaryotic RNA-guided RNA modification in bacterial IS110 transposons - Nature Microbiology
Structural and phylogenetic analyses show that programmable RNA modifications ubiquitous in archaea and eukarya arose from bacterial transposons.
www.nature.com
January 2, 2025 at 5:23 PM
OUT NOW: Evolutionary origins of archaeal and eukaryotic RNA-guided RNA modification in bacterial IS110 transposons
by Samuel Sternberg, @audeber.bsky.social & co
www.nature.com/articles/s41...
by Samuel Sternberg, @audeber.bsky.social & co
www.nature.com/articles/s41...
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
Many people talk about the "Golden Age of Antibiotics", but I hadn't seen it visualized properly.
Just how many types of antibiotics were discovered during that time?
So, I visualized it myself!
Just how many types of antibiotics were discovered during that time?
So, I visualized it myself!
December 23, 2024 at 10:09 AM
Many people talk about the "Golden Age of Antibiotics", but I hadn't seen it visualized properly.
Just how many types of antibiotics were discovered during that time?
So, I visualized it myself!
Just how many types of antibiotics were discovered during that time?
So, I visualized it myself!
www.researchgate.net/profile/Osie... via @researchgate
Osiel Silva Gonçalves | Achievement
See this researcher's achievement on ResearchGate.
www.researchgate.net
December 22, 2024 at 12:09 PM
www.researchgate.net/profile/Osie... via @researchgate
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
SCARAP: scalable cross-species comparative genomics of prokaryotes. #ComparativeGenomics #Genomics #ProkaryoteGenomes #Bioinformatics 🧬 🖥️
academic.oup.com/bioinformati...
academic.oup.com/bioinformati...
SCARAP: scalable cross-species comparative genomics of prokaryotes
AbstractMotivation. Much of prokaryotic comparative genomics currently relies on two critical computational tasks: pangenome inference and core genome infe
academic.oup.com
December 16, 2024 at 10:05 PM
SCARAP: scalable cross-species comparative genomics of prokaryotes. #ComparativeGenomics #Genomics #ProkaryoteGenomes #Bioinformatics 🧬 🖥️
academic.oup.com/bioinformati...
academic.oup.com/bioinformati...
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
"Functional and evolutionary significance of unknown genes from uncultivated taxa", a publication from the lab of @jhcepas.bsky.social (2023), highlights what can be achieved by integrating GMGC and other gene catalogs to hunt for novel gene families in 150k genomes
www.nature.com/artic...
www.nature.com/artic...
Functional and evolutionary significance of unknown genes from uncultivated taxa
Nature - We analysed 149,842 environmental genomes from multiple habitats and compiled a curated catalogue of 404,085 functionally and evolutionarily significant novel gene families exclusive to...
www.nature.com
December 17, 2024 at 2:01 PM
"Functional and evolutionary significance of unknown genes from uncultivated taxa", a publication from the lab of @jhcepas.bsky.social (2023), highlights what can be achieved by integrating GMGC and other gene catalogs to hunt for novel gene families in 150k genomes
www.nature.com/artic...
www.nature.com/artic...
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
NEW preprint!🥳
Orthogroups are a prerequisite for comparative genomics and Tree of Life inquiries
Introducing #OrthoHMM, software that improves the inference of orthogroups (blue in fig)
OrthoHMM may refine our understanding of genome evolution and the Tree of Life
🔗 tinyurl.com/4s9mwxz6
🧵 1/8
Orthogroups are a prerequisite for comparative genomics and Tree of Life inquiries
Introducing #OrthoHMM, software that improves the inference of orthogroups (blue in fig)
OrthoHMM may refine our understanding of genome evolution and the Tree of Life
🔗 tinyurl.com/4s9mwxz6
🧵 1/8
December 17, 2024 at 6:13 PM
NEW preprint!🥳
Orthogroups are a prerequisite for comparative genomics and Tree of Life inquiries
Introducing #OrthoHMM, software that improves the inference of orthogroups (blue in fig)
OrthoHMM may refine our understanding of genome evolution and the Tree of Life
🔗 tinyurl.com/4s9mwxz6
🧵 1/8
Orthogroups are a prerequisite for comparative genomics and Tree of Life inquiries
Introducing #OrthoHMM, software that improves the inference of orthogroups (blue in fig)
OrthoHMM may refine our understanding of genome evolution and the Tree of Life
🔗 tinyurl.com/4s9mwxz6
🧵 1/8
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
Gene acquisition by giant transposons primes eukaryotes for rapid evolution via horizontal gene transfer
Science Advances
www.science.org/doi/10.1126/...
Science Advances
www.science.org/doi/10.1126/...
Gene acquisition by giant transposons primes eukaryotes for rapid evolution via horizontal gene transfer
Giant transposons called “Starships” mediate horizontal gene transfer in fungi to drive repeated evolution and rapid adaptation.
www.science.org
December 11, 2024 at 5:20 AM
Gene acquisition by giant transposons primes eukaryotes for rapid evolution via horizontal gene transfer
Science Advances
www.science.org/doi/10.1126/...
Science Advances
www.science.org/doi/10.1126/...
Reposted by Osiel Gonçalves 💻🧬🧪🌱🍄
Nice Review Article published this year in Nature Microbiology:
Cell envelope diversity and evolution across the bacterial tree of life
www.nature.com/articles/s41...
Cell envelope diversity and evolution across the bacterial tree of life
www.nature.com/articles/s41...
Cell envelope diversity and evolution across the bacterial tree of life - Nature Microbiology
This Review discusses the diversity of cell envelope architectures across major bacterial phyla and highlights conserved features found in diderm lineages.
www.nature.com
December 11, 2024 at 11:05 PM
Nice Review Article published this year in Nature Microbiology:
Cell envelope diversity and evolution across the bacterial tree of life
www.nature.com/articles/s41...
Cell envelope diversity and evolution across the bacterial tree of life
www.nature.com/articles/s41...
www.researchgate.net/profile/Osie... via @researchgate
December 1, 2024 at 2:16 PM
www.researchgate.net/profile/Osie... via @researchgate