Basically, I'm looking for the same table than this one (http://genomesonline.org/documents/Export/gold.xls) and this one from GOLD genomes (http://genomesonline.org/cgi-bin/GOLD/index.cgi), but containing the non-sequenced bacteria too.
Not really a list, and just for at least partially sequenced bacteria: http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2
Be careful: some of those are just proposed, and on some of them I have serious doubts.
The "definitive" list ist the "List of Prokaryotic names with Standing in Nomenclature":
http://www.bacterio.net/-allnames.html
It contains all validly published species and is updated regularly.
agree with Guilio Dalla Riva. you can search it on NCBI site
Thanks for you answers. I'm looking for a downloadable table. It seems neither NCBI or bacterio offer this possibility.
try :
The Global Biodiversity Information Facility (GBIF) at : http://www.gbif.org/
and Catalogue of Life at : http://www.catalogueoflife.org/
these contain valid data.
I'm looking for tools to semi-automate finding non-coding RNAs in bacterial RNA-seq data. I've been able to find some tools but I'm still quite lost (see link below). I've also seen this Biostar...
02 March 2014 4,293 2 View
We found a 200 fold change regulation (with good read coverages). Has anyone observed this?
02 March 2014 2,122 5 View
I would like to demonstrate that Haemophilus influenzae, a common human pathogen, lacks numerous genes in comparison with its ancestor due to genome reduction. I need to know its ancestor to...
01 February 2014 8,964 2 View
I need to predict membrane-related genes in a 2000 genes list. Could anyone suggest an appropriate approach? I've already filtered out the ones retrieved with GO terms, so this way has already...
01 February 2014 6,681 2 View
What's the difference between these two filtering alternatives when looking for all proteins available for a selected organism in NCBI? I get the double of proteins in 'noexp' case!
01 February 2014 1,014 2 View
I would like to perform whole genome identification of pseudogenes. Could anyone suggest a good strategy?
01 February 2014 3,176 2 View
Hi community, I would like to know how to locate a certain protein sequence in the whole protein 3D structure. We are trying to see if these short protein sequences are located on the surface. I...
01 February 2014 4,349 10 View
Hi, I would like to know the cDNA quantity you recommend for the mentioned PCR. It will be used to validate RNA-Seq results. Thanks, Bernardo
31 December 2013 8,136 9 View
I would like to know your opinions about the correlation I obtained between qPCR and RNA-seq for 8 genes, two of them being reference genes. The r2 is good but I worry that qPCR FC are not as high...
31 December 2013 7,975 17 View
Hi community, We have identified vaccine candidates via an ex-vivo RNA-seq approach. The next step would be to perform conservation of these candidates (about 20) between multiple bacterial...
11 December 2013 9,607 1 View
Hello, I am currently having problems with RNA extraction. I am using mouse liver (C57BL6J), and I have extracted RNA from mouse liver before. Before this experiment, my final RNA pellets were...
11 August 2024 7,082 3 View
I have been doing the m6A dot blot for a while with no improvement, I am extracting the RNA, and I can see the dots although the three biological replicas give a different reading on the memberan...
10 August 2024 8,539 5 View
I've been performing RNA extraction on cotton petiole tissue for a few months now using the method described in the following paper, a derivative of the typical hot borate method...
08 August 2024 9,882 2 View
I am currently working on LncRNA; to know the lncRNA-protein interactions I want to do RNA pull down assay, so I need to design primers with T7 promoter. I need assistance in this regard.
07 August 2024 6,622 1 View
I would like to understand potential safety concerns while handling SEB in the lab. Especially while working in animal house facility. Would like to know precautions for handling. Sigma MSDS...
07 August 2024 6,034 3 View
Recently, we observed that 99% of the sequences in our RNA-seq data corresponded to the E. coli genome. Despite multiple DNAse treatments after RNA extraction and ribosomal depletion, we were...
06 August 2024 807 3 View
How do soil microflora interact with plant roots and influence plant nutrition, health, and productivity?
06 August 2024 9,618 3 View
I am planning to collect human fecal samples for metatranscriptomic analysis using MGI. These samples are from indigenous people living in a region with high temperatures. I will have access to a...
06 August 2024 1,367 3 View
There are anaerobic gas pak jars and environment providers in the laboratory that provide anaerobic environmental conditions for the growth of anaerobic bacteria. However, there is no anaerobic...
05 August 2024 4,945 3 View
I aim to be as skeptical as possible regarding whether a pair of orthologous genes results in the same phenotype in their different but related bacterial organisms under similar environmental...
05 August 2024 6,787 4 View