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Corrections and additional information (Dagfinn Skaare, 07 August 2014)

The complete affiliation information for University of Tromsø is 'Department of Medical Biology, Faculty of Health Sciences, University of Tromsø, Tromsø, Norway'.  Arnfinn Sundsfjord lacks the following additional affiliation: 'Reference Centre for Detection of Antimicrobial Resistance, University Hospital of North Norway, Tromsø, Norway'.   There is also a minor error in Table 6: in the heading, 'AMP', 'AMC' and 'PIP' have been assigned note 'c'. The correct is note 'd'.   read full comment

Comment on: Skaare et al. BMC Microbiology, 14:131

Correction (Cecilia M. Arraiano, 27 June 2014)

After publication of this work we noticed that we inadvertently failed to indicate that we receive funding from FCT project PTDC/CVT/102293/2008. read full comment

Comment on: Moreira et al. BMC Microbiology, 12:268

Misleading information could lead to improper conclusions   Misleading information could lead to improper conclusions Misleading information could lead to improper conclusions Misleading information could lead to improper conclusions (Narjol Gonzalez-Escalona, 18 March 2014)

The manuscript has a lot of interesting data however it fails in several issues and shows milseading information and conclusions. I will try to summarize the some of the main issues that I have with this... read full comment

Comment on: Urmersbach et al. BMC Microbiology, 14:59

On the synthesis of polyhydroxyalkanoate and the consistency of gene names (Anibal Lodeiro, 02 January 2014)

The authors performed an interesting work on the phasins of Bradyrhizobium japonicum (now renamed as B. diazoefficiens) USDA 110, and addressed the study of genes for polyhydroxyalkanoate (PHA) biosynthesis. However, in this part of their work they overlooked our article published in May, 2013 [1] where we performed a thoughtful characterization of the five PHA synthase (phaC) genes of USDA 110, and we described their functions in free-living and symbiotic bacterial... read full comment

Comment on: Yoshida et al. BMC Microbiology, 13:290

Accession number (Philippa Harris, 30 July 2013)

The data from this article can be accessed via NCBI SRA accession number SRP026241 read full comment

Comment on: Hess et al. BMC Microbiology, 11:45

Cange of e-mail addresses (Robert Forster, 10 April 2013)

The author e-mail address has changed to robert.forster at agr dot gc dot ca read full comment

Comment on: Whitford et al. BMC Microbiology, 1:5

PhaM and the biogenesis of PHB granules in R. eutropha (Marcelo Muller-Santos, 06 February 2013)

The article published by Wahl and co-authors brings interesting results concerning the biogenesis of PHB granules and the involvement of PhaM (a DNA-PHB binding protein). Undoubtedly, as remarked by the authors the biogenesis of PHB granules remains an open field of research since the process is still not totally clear. However, the finding of PhaM and its characterisation will contribute to future studies of other groups acting in this field, in addition to bringing new possible facets to the cellular role of PHB. read full comment

Comment on: Wahl et al. BMC Microbiology, 12:262

Correction by corresponding author (Omar Oyarzabal, 26 September 2012)

Reference 2 should be Anon: C-EnterNet 2008 Annual Report, National Integrated Enteric Pathogen Surveillance Program. Public Health Agency of Canada; 2010 [http://www.phacaspc.gc.ca/c-enternet/pubs/2008/index-eng.php].

Reference 6 should be Sails et al:Evaluation of three microaerobic systems for the growth and recovery ofCampylobacter spp. In: Lastovica, AJ, Newell, DG, Lastovica, EE. Campylobacter, Helicobacter and related organisms. pp. Pinelands, South Africa: The Rustica Press.1998, 39-42. read full comment

Comment on: Zhou et al. BMC Microbiology, 11:175

Correction by the corresponding author (Ichizo Kobayashi, 28 June 2012)

Place: Additional file 1 Phylogenetic tree of H. pylori based on MLST genes.
P2. L6-7.
Before correction: 1. Adams DW, Errington J: Bacterial cell division: assembly, maintenance and
disassembly of the Z ring. Nat Rev Microbiol 2009, 7:642-653.
After correction: 1. H. pylori MLST database [http://pubmlst.org/helicobacter/]. read full comment

Comment on: Kawai et al. BMC Microbiology, 11:104

Corrections by a corresponding author (Ichizo Kobayashi, 22 July 2011)

1.
Place: Page 14. Legend for Figure 8B. Line 5.
Before correction: sotA
After correction: sotB

2.
Place: Page 14. Figure 8C (c)
Before correction: sotA
After correction: sotB
read full comment

Comment on: Kawai et al. BMC Microbiology, 11:104

Atypical cohort characteristics, means the findings are not generalisable to all subjects (Andrew Kewley, 21 July 2011)

The methods of this study are certainly interesting, however one must question the value of doing such a study when the cohort is atypical of the disease in general.

Rapid onset after viral infection is widely reported among cases of Chronic Fatigue Syndrome and those are the cases which are most likely to involve infectious agents.

However in the previous study by this group, which utilised basically the same twin cohort, it was stated that only two subjects reported sudden onset of fatigue [1].

Secondly, the median SF-36 physical functioning composite score of 41 is atypically high for a CFS cohort.

In a recently published study measuring the functional status of CFS subjects and their carers, the mean physical functioning composite score of CFS... read full comment

Comment on: Sullivan et al. BMC Microbiology, 11:2

Error? (Marco Riojas, 13 June 2011)

The caption for Figure 1 lists the primers used in the multiplex PCR, including ORF03655 F-R. However, this appears to conflict with the information provided in Table 1, which states that ORF03655 F-R was only used in singleplex. Further, Table 1 also states that ORF03991 F-R was used in the multiplex. Should the caption for Figure 1 read "ORF03991" rather than "ORF03655"? Aside from being consistent with Table 1, this would make more sense as all four prophages would be amplified, rather than only three (with Prophage #2 represented twice.) read full comment

Comment on: Sozhamannan et al. BMC Microbiology, 6:34

"SF-36 physical function" should read "SF-36 PCS" I believe (Tom Kindlon, 09 February 2011)

There are 8 SF-36 subscales: Physical Functioning, Role-Physical, Bodily Pain, General Health, Vitality, Social functioning, Role-Emotional and Mental Health. There are also two composite scores: Physical Composite Score (PCS) and Mental Composite Score (MCS).

Following the link used in the text http://www.sf-36.org/nbscalc/index.shtml , one can see the population norms for Sweden: (Mean, SD) Physical Function(ing) (87.9, 19.6), Role-Physical (83.2, 31.8), Bodily Pain (74.8, 26.1), General Health (75.8, 22.2) Vitality (68.8, 22.8), Social functioning (88.6, 20.3), Role-Emotional (85.7, 29.2), Mental Health (80.9, 18.9), Physical Composite Score (PCS) (50.0, 10) and Mental Composite Score (MCS) (50.0, 10).

We are told that the Physical Function score (Median... read full comment

Comment on: Sullivan et al. BMC Microbiology, 11:2

correcting typos (Volker F. Wendisch, 13 January 2011)

- the dld gene identifier is Cg1027, but has been mis-spelled in the sections labelled conclusions
- spectinomycin was added to the media described in the paragraph "Dld is required for utilization of D-lactate"
- in the legend to fig. 4 squares and circles have been mixed up. read full comment

Comment on: Kato et al. BMC Microbiology, 10:321

Questions about 'CFS' and 'ICF' selection criteria of cohort (Angela Kennedy, 13 January 2011)

With regard to the cohort under study, I note that the authors write that their analysis sample consisted of "45 pairs of monozygotic twins discordant for clinically evaluated chronic fatiguing illness" and that "32 met criteria for CFS and 13 for ICF with a median duration of chronic fatigue of 8 years with no significant difference between
affected twins with CFS and ICF" (1). They then reference both the Fukuda et al criteria (2), and Reeves et al criteria (3), though I believe the latter in error, as the actual Reeves et al criteria were apprently produced in 2005 (4). Perhaps the authors could clarify whether this is the case.

Both criteria have been critiqued for their inclusion of non-neurological and psychological symptoms and exclusion of neurological symptoms... read full comment

Comment on: Sullivan et al. BMC Microbiology, 11:2

Overlooks previously published work (Alex O'Neill, 26 October 2010)

Petek et al. have failed to cite a previous study that has delineated the transcriptional response of S. aureus to fosfomycin and other conditions that block early-stage cell-wall biosynthesis (O'Neill AJ, Lindsay JA, Gould K, Hinds J, Chopra I. [2009] Transcriptional signature following inhibition of early-stage cell wall biosynthesis in Staphylococcus aureus. Antimicrob Agents Chemother. 53:1701-4). read full comment

Comment on: Petek et al. BMC Microbiology, 10:159

mycothiol biosynthesis starts from Ins-1-P not Ins (Ralf Stephan, 20 August 2010)

The authors claim that inositol and thus, Ins-P phosphatase avtivity, is necessary for mycothiol biosynthesis in M. tuberculosis. This is not the case.

In short, mycothiol biosynthesis appears to start from inositol-1-phosphate, not inositol, thus doing away with the claimed need for IMPase in mycothiol biosynthesis because inositol-1-phosphate is readily made from glucose-6-phosphate, catalyzed by Ino1.

Reference:
G. L. Newton, P. Ta, K. P. Bzymek, and R. C. Fahey. Biochemistry of the initial steps of mycothiol biosynthesis. J Biol Chem, 281(45):33910–20, Nov 2006.
PMID 16940050

Regards,
Ralf Stephan
Librarian, currently working on bioinformatics annotation of M.tb. read full comment

Comment on: Movahedzadeh et al. BMC Microbiology, 10:50

Tetrahymena pyriformis has no resting cysts (ANA MARTIN_GONZALEZ, 26 February 2010)

This paper focuses on a very interesting topic: the role of protozoa as reservoirs of human pathogens. However, I am afraid but Tetrahymena pyriformis has not resting cyst. So, its life cycle does not include an encystment-excystment cycle. Many papers support this affirmations. For example, see:
Sauvant, N et al (1999). Chemosphere 38:1631-69
o visit the Tetrahymena web site (look for in Google).
In conclusion, two alternative facts could be true:
a) The ciliate identification is wrong
b) The showed "resting cyst" is really an encapsulated vegetative cell. Remember tha Tetrahymena has many mucocysts that discharge their content in the presence of some unfavourable environmental or in the presence of some compounds as Alcian Blue (J. Cell Sci. 1983, 64:49-67)... read full comment

Comment on: Pushkareva et al. BMC Microbiology, 10:26

A new address is available (Riadh Hammami, 23 January 2009)

The new address of BACTIBASE database is http://bactibase.pfba-lab-tun.org; or http://pfba-lab-tun.org/bactibase<br>Unfortunately, the previous address (cited in the paper) is not available. read full comment

Comment on: Hammami et al. BMC Microbiology, 7:89

Changes in the SnaBI-SpeI PFGE nomenclature (Iker Sevilla, 30 October 2008)

The PFGE nomenclature used in the present paper has been updated according to the instructions of the standardized database at: http://www.mri.sari.ac.uk/bacteriology-current-project-01-01.asp read full comment

Comment on: Sevilla et al. BMC Microbiology, 7:18

Comments, missing information and inaccuracies (Josefina Mansilla, 11 August 2008)

We read with interest the report by Castillo-Rojas, et al (1) regarding the Presence of Helicobacter pylori in a Mexican Pre-Columbian Mummy. As part of the research group, we would like to make some comments, to add missing information and to clarify some inaccuracies.This research was conducted in 2003 by our multidisciplinary team including diverse medical specialists (gastroenterologist-endoscopist, general surgeon, rheumatologist, and radiologist), physical anthropologists and biologists from different Mexican institutions, some of them unaware of the submission and publication of the paper. A full length article for the Proceedings of the VI World Congress on Mummy Studies 2007 was submitted for publication to the Editorial Service of the University of Las Palmas de Gran Canaria... read full comment

Comment on: Castillo-Rojas et al. BMC Microbiology, 8:119

A splendid base for primer design (Jun Zhang, 25 July 2008)

Based on the PWM, I designed whole genome cloning primers(10 pairs) and genotyping primers(1 pair). They work well in my experiments. read full comment

Comment on: Qiu et al. BMC Microbiology, 2:29

Figure 3 is incorrectly labeled; the primers were NSI1/58A2R. (Kendall Martin, 02 August 2007)

Figure 3 is incorrectly labeled; the primer pair was not NSI1/NLB4 as stated. These amplifications were performed with the primer pair, NSI1/58A2R. The NSI1/NLB4 product is typically a kilobase or larger. read full comment

Comment on: Martin et al. BMC Microbiology, 5:28

correction (Carol Iversen, 04 July 2006)

Sorry, I meant arginine dihydrolase (Table 2). read full comment

Comment on: Iversen et al. BMC Microbiology, 6:28

WHEN TO DESIGNATE A MOLECULAR EPIDEMIOLOGICAL STUDY OF TUBERCULOSIS AS “POPULATION-BASED ” ? (Orhan Kaya Koksalan, 12 September 2005)

In a recent molecular epidemiological study of tuberculosis(TB) performed by Zozio et al(1), a total of 245 Mycobacterium tuberculosis strains from Turkish patients living in Malatya (n=147) and Ankara (n=98), were collected during an interval of seven years (from 1998 to 2004) and were subjected to genotyping. According to this article(1), the overall TB incidence rate in Turkey was ranged between 26.2 to 26.6 for 100000 inhabitants which in fact, is an underestimate only. Therefore, there must be at least 1578 and 7392 incidental cases of TB in Malatya and Ankara (4000000 inhabitants) along the entire study period, respectively. In other words, this “population-based” study covered less than 1.3% (98/7392) of the expected TB cases in Ankara. As stated by Murray(2), implicit... read full comment

Comment on: Zozio et al. BMC Microbiology, 5:44