About me
1. Academic Background
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Postdoctoral Researcher in Bioinformatics (Mar/2020 – )
National Laboratory of Scientific Computing, Petrópolis, Brazil.
Fellowship: University of Sao Paulo Foundation (FUSP)
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Postdoctoral Researcher in Genome Evolution and Ecology (Nov/2019 – Fev/2020)
University of Vienna, Vienna, Austria.
Fellowship: European Research Council
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Ph.D. in Nuclear Energy In Agriculture (Biology in Agriculture and Environment) (Out/2015 – Sep/2019 )
University of Sao Paulo, Piracicaba, Brasil.
Supervisor: Prof. Dra. Siu Mui Tsai
Fellowship: Sao Paulo Research Foundation (FAPESP/Brazil) [Dec/2016 - ) | National Council for Scientific and Technological Development (CNPq/Brazil) [Oct/2015 – Nov/2016).
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Visiting PhD student (April/2018 – March/2019 )
Archaea Biology and Ecogenomics Division (University of Vienna/Austria)
Supervisor: Prof. Dra. Christa Schleper
Fellowship: Sao Paulo Research Foundation (FAPESP/Brazil)
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Visiting Scholar (Aug/2017-Set/2017)
Faculty of Medicine (KU Leuven/Belgium)
Supervisor: Prof. Dra. Karoline Faust
Fellowship: Sao Paulo Research Foundation (FAPESP/Brazil)
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Master Science in Bioinformatics (2013 – 2015)
University of Sao Paulo, Sao Paulo, Brasil.
Supervisor: Prof. Dr. João Carlos Setubal
Fellowship: Sao Paulo Research Foundation (FAPESP/Brazil)
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BSc. In Life Sciences (2008 – 2012)
Universidade Federal do Pampa, São Gabriel, Brasil.
Supervisor: Prof. Dr. Luiz Fernando Wurdig Roesch
Fellowship: National Council for Scientific and Technological Development (CNPq/Brazil)
2. Professional certification
EMBO Practical Course - Tree building: Advanced concepts and practice of phylogenetic analysis (European Molecular Biology Organization/Portugal); Fungal Genomics (Joint Genome Institute/USA); Gone fishin, a Genome-Resolved Metagenomics Workshop (University of Chicago/USA and Friedrich-Schiller-Universität Jena/Germany); Ecological Network Inference and Analysis (KU Leuven/Belgium); Bioinformatics for RNA-Seq Analysis (National Laboratory of Scientific Computing/Brazil);
3. Ad-hoc journal Reviewer
Publons profile: https://publons.com/author/1498193/leandro-nascimento-lemos#profile
● PeerJ; FEMS Microbiology Ecology; Parasitology; Frontiers in Environmental Science; BMC Microbiology.
PLoS One; Scientific Reports; Genomics;Biochimie; Brazilian Journal of Microbiology; Microbial Ecology; Computational and Structural Biotechnology Journal
4. Computer Skills:
Linux: Advanced | Shell: Intermediate | Perl: Intermediate |
R: Advanced | Python: Basic | LaTeX: Basic | MySQL: Basic | Machine Learning: Basic
Advanced user: Qiime 2; DADA2; Megahit; Metabat2; Maxbin 2; Anvi’o; Bowtie; Samtools; etc.
● Software development: BMP-OS (https://www.ncbi.nlm.nih.gov/pubmed/27220974) [Colaborator]
● Sabia App 2.0 (https://app.sabia.lncc.br/signin) [Colaborator]
5. Teaching Experience
● Invited Teacher (April/2021 – April/2021) - Bioinformatics, Genomics, and microbial ecology - Federal University of Mato Grosso do Sul (UFMS/Brazil): Postgraduate Program in Agronomy
Invited Teacher (Aug/2020 – Aug/2020) - Bioinformatics, Genomics, and microbial ecology - Federal University of Mato Grosso do Sul (UFMS/Brazil): Postgraduate Program in Agronomy
● Invited Teacher (Dec/2017 – Dec/2017) - Bioinformatics course for Next-generation sequencing data in Microbial Ecology - Federal University of Sao Carlos (UFScar/Brazil): Postgraduate Program in Biotechnology
● Invited Teacher (Aug/2017 – Aug/2017) - Bioinformatics course for Next-generation sequencing data in Microbial Ecology - Federal University of Viçosa (UFV/Brazil): Postgraduate Program in Microbiology
● Invited Teacher (2015 – 2017) – Bioinformatics, Genomics, and microbial ecology – University of Sao Paulo (USP/Brazil): Bachelor in Agronomy and Bachelor in Life Sciences.
Research
My work focuses on integration of meta’omics data for bridging microbial ecology, microbial processes and ecosystem functioning.
Genome-centric metagenomics
Modeling complex systems with network models
The use of network models has allowed us to understand better the interactions between protists, prokaryotics and fungal in complexity microbiome systems.
New Bioinformatics tools
Publications
Google Scholar Profile:
Contact
Research
My work focuses on integration of meta’omics data for bridging microbial ecology, microbial processes and ecosystem functioning.
New Bioinformatics tools
Genome-centric metagenomics
A genome-centric approach is one that emphasizes the analysis of complete or near-complete genomes, as opposed to catalogs of genes based on sequencing read analysis. The advantages of using a genome-centric analysis are that it provides more extensive data on which to base phylogenetic identifications and the establishment and quantification of entire gene repertories in single organisms, thereby allowing the possibility of a fuller understanding of individual microbial physiologies as well as their relationship to other organisms sharing the same ecological niche.
Modeling complex systems with network models
The use of network models has allowed us to understand better the interactions between protists, prokaryotics and fungal in complexity microbiome systems.
Recent advances in science and technology are leading to a revision and re-orientation of methodologies, addressing old and current issues under a new perspective. Advances in next generation sequencing (NGS) are allowing comparative analysis of the abundance and diversityof whole microbial communities, generating a large amount of data and findings at a systems level. The current limitation for biologists has been the increasing demand for computational power and training required for processing of NGS data.