In 1997 a group of Brazilian scientists had an ambitious
idea: to sequence the entire genome of a free-living organism.
At that time, only a handful of such genomes had been completely
sequenced. This idea was their response to a request from the
State of Sao Paulo Research Funding Agency (FAPESP) of something
"big" to boost biotechnology research in the state.
They soon realized that they would need a thing called
bioinformatics, which is using computers to support the
processing and analysis of DNA and protein sequences that a
genome project generates. Joao Carlos Setubal and myself, being
the closest available bioinformaticians in sight, were
immediately contacted. We happily agreed to participate in this
first Brazilian genome project, something that changed our life
forever. For most participants, the genome was a hallmark.
There is your career pre-genome (P.G.) and then there is your
career in the genomic era (G.E.)
The work was so intense that we did not have time to publish
much about what we did, about all the code we wrote to support this
truly distributed project, in which the Internet played a key
role. But I list here some related publications: the Nature paper
with the first genome, and papers concerning the other,
subsequent genome projects. Sequencing genomes has turned into
a Brazilian mania, with more than 10 projects finished or
underway by early 2002.
- J. Meidanis.
Xylella Genome Project and the Role of Bioinformatics.
Presented at Uniararas, Araras, Brazil, in October 2019.
- A. L. Vettore et al.
Analysis and Functional Annotation of an Expressed Sequence Tag
Collection for Tropical Crop Sugarcane. Genome Research
13, 2725-2735 (Published online before print November 12,
- João Meidanis, Marília D. V. Braga and Sergio Verjovski-Almeida.
Whole-Genome Analysis of Transporters in the Plant Pathogen
Microbiology and Molecular Biology Reviews, June 2002,
p. 272-299, Vol. 66, No. 2.
MMBR Reference (Abstract)
- A. C. R. da Silva et al.
Comparison of the genomes of two Xanthomonas pathogens with
differing host specificities. Nature 417, 459-463 (23 May 2002).
- Marília D. V. Braga and João Meidanis.
Automatic Annotation of Transport Proteins.
Invited speech at the 27th Meeting of the Federation of European
Biochemical Societies, Lisbon, June/July 2001.
- Marília D. V. Braga, Zanoni Dias, Tzy Li Lin, João Meidanis,
José A. A. Quitzau, Felipe R. da Silva, and Guilherme P. Telles.
Bioinformatics of the Sugarcane EST Project.
Genetics and Molecular Biology, Volume 24, pp. 9-15, 2001.
A preliminar version follows.
Download gunzipped ps
- A. J. G. Simpson et al.
The genome sequence of the plant pathogen Xylella
fastidiosa. Nature 406, 151-157 (13 July 2000).
Last modified: Tue Oct 15 11:44:10 -03 2019