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Sep 22, 2017 - are provided with free text boxes to elaborate on their assessment. These free text ... breastfeeding mothers participating in the ANRS12174 clinical trial in. Burkina Faso .... Institution and Country: Istituto Superiore di Sanità, Italy. General .... Dear reviewer, thanks for your comments and review. We have ...
PEER REVIEW HISTORY BMJ Open publishes all reviews undertaken for accepted manuscripts. Reviewers are asked to complete a checklist review form (http://bmjopen.bmj.com/site/about/resources/checkli st.pdf) and are provided with free text boxes to elaborate on their assessment. These free text comments are reproduced below.

ARTICLE DETAILS TITLE (PROVISIONAL)

AUTHORS

HIV-1 disease progression in immune-competent HIV-1 infected and breastfeeding mothers participating in the ANRS12174 clinical trial in Burkina Faso, South Africa, Uganda and Zambia: a cohort study SOME, Eric; Engebretsen, Ingunn; Nagot, Nicolas; MEDA, Nicolas; Vallo, Roselyne; Kankasa, Chipepo; Tumwine, James; SingataMadliki, Mandisa; Harper, Kim; Hofmeyr, G Justus; Van de Perre, Philippe; Tylleskär, Thorkild

VERSION 1 – REVIEW

REVIEWER REVIEW RETURNED GENERAL COMMENTS

Marina Giuliano Istituto Superiore di Sanità, Italy 22-Sep-2017 General Comment The issue addressed by this article is not new and was raised in some papers several years ago. However, more recent data have excluded any impact of breastfeeding on HIV disease progression (and breastfeeding up to 2 years is recommended in the most recent HIV guidelines). Also, the authors have recently published (Plos One 2017), a paper on the same patients of the same trial demonstrating that breastfeeding was not negatively correlated with the BMI (“No major change in mean BMI was seen in this cohort over a 50-week period during lactation”), partially overlapping the results of the present paper. Specific comments Abstract Methods. The authors say that the analysis was carried out on “HIV 1 negative infants”. But the objective is to assess disease progression in “mothers”. Line 18 : a multiple logistic regression model was “also” run…. Why “also” ? The description of the composite endpoint is not clear: at what time point were mother’s weight, CD4 cell count and HIV-1 clinical stage assessed ? Results. In the model here the authors mention weight change, CD4 cell count and HIV-1 viral load, while the latter was not mentioned in the methods section. Also, the authors report data about the impact of EPBF but not about “any breastfeeding”. Lines 31-36. There is no indication on when the parameters were assessed. CD4 count at the end of follow-up ? 6 months ? 50 weeks ? Body mass index and hemoglobin, at baseline ? Lines 38-43. In the methods section the authors state that they assessed the role of BF duration on HIV progression but then here they mention the treatment arm (a finding, by the way, of difficult explanation).

Conclusions. Here the authors mention “mother’s weight, CD4 cell count and HIV-1 viral load change or HIV-1 disease progression”. However, it is not clear what “change” means (comparison between baseline and the end of follow-up ?). Follow-up time is never reported. Introduction Page 3. Lines 17-18. Again here mother’s weight, CD4 cell count, HIV-1 viral load (and not disease stage) seem to be the endpoints of the study. Page 3. Line 33. The authors can report just only one reference here. Reference n. 13 refers to HIV-positive breastfeeding women. Page 3. Line 57 and Page 4. Lines 4-6. The references cited by the authors are at least 10-year old when the debate about this issue was terminated with the conclusion that breastfeeding was not harmful. Methods Page 6. Line 10. The authors mention here “the first screening visit” (is it the same as “screening one” reported later ?). Is “the first screening visit” during pregnancy (what week of gestation ?) or after partum ? It should be specified. Page 6. Lines 14-15. “The dependant variables were mothers’ weight, CD4 cell count and HIV-1 viral load”. At what time point ? For example “weight loss” is measured at 26 weeks; the other parameters ? Page 6. Line 18. The authors say that “mothers’ weights were not available for week 50” but in line 12 they had reported that weight was assessed also at week 50. Results Page 8. Line 15. “important” is not appropriate to describe viral suppression. Which could be the reason for a greater viral suppression in South Africa ? Table 1. Baseline characteristics. When is baseline for this study ? Also, since the Table contains many data that are not “baseline” ( i.e. mean EPBF duration etc) the title should be changed. First two rows: how can they be different ? Aren’t AZT and 3TC administered together ? In general, the way the data are reported in the Table is not clear. The authors report the mean with 95% CI. However, does the comment reported in lines 13-16 (pag. 8) refer to statistically significant differences ? Table 2. The title reports “mother’s weight, CD4 cell counts and HIV1 viral load “change” . As I said before, the definition of change is not clear. Both Table 2 and Table 3 are very long and difficult to read. Pag. 24. Lines 10-24. The authors here report associations between EPBF duration and different parameters, findings of difficult interpretation. Pag. 24. Lines 36-58. Same as comment above. Discussion Pag. 25. Lines 12-17. What is the rational explanation of this finding ? Pag. 25. Lines 24-29. Findings of difficult explanation. Pag. 25 Lines 41-58. The authors report in different ways the findings of a single study (ref. 33) in a confused paragraph. Pag. 26. Line 12. As I said, ref. 35, dated 2005, concluded that breastfeeding was not harmful, in terms of mortality, to the mothers. However, the authors in the following paragraph mention ref. N. 18 which is dated 2001 (that is before ref. 35). Pag. 26. Line 56. “HIV-1 infection status”. Is it viral load ?

REVIEWER

REVIEW RETURNED

Dr Eileen Thomas Stellenbosch University Cape Town South Africa 25-Sep-2017

GENERAL COMMENTS

25 September 2017 Re: Peer-review HIV-1 disease is not made worse by breastfeeding in non-immunocompromised HIV-1 infected mothers participating in the ANRS12174 clinical trial Thank you for opportunity to review aforementioned paper. The authors address a clinically relevant question on a very important public health matter: Does a -prescribed behavior (exclusive breastfeeding) worsen clinical outcomes (in this paper: HIV-1 disease progression) in non-immunocompromised HIV-1 infected mothers. Although the paper gives a fair overview of how they made this conclusion, they are less successful in explaining (or offering possible explanations as to how) this occurs. Furthermore; the implications of the study findings aren’t outlined. Comments 1.) Abstract • The Objective is poorly phrased; consider: “We have assessed HIV disease progression among HIV-1 positive mothers in relation to duration of any or exclusive breastfeeding….” • The analysis was completed on….. • Conclusion is poorly phrased. In which direction (eg decreases) or manner (eg fluctuation) was breastfeeding not a risk factor? 2.) Strength and limitations • Remove “typically” representive • Remove “slightly” biased 3.) Introduction • Line 48- expand on most recent WHO guidelines: it is not just in contexts where not safe…also affordable, available…. • Line 52- add: HIV disease progression AS assessed … • Page 4, Line 8-9: measured by weight-changes, CD4 cell count…. 4.) Methods • Page 5, line 16: antenatal (not ante-natal) • Ethics: add ethics approval numbers 5.) Results • Table 1b: South Africa had markedly lower rates of vaginal deliveries vs other countries. Can the authors kindly elaborate on possible reasons for this occurrence and how this may have skewed findings in stratified analysis? • Page 24, line 1: non-significant (not was insignificant) 6.) Discussion • One of the main study findings are that mothers whose babies were allocated to the LPV/RTV arm were found to have accelerated HIV-1 disease progression. Yet in Results (page 24, line 19-21) the authors state that mothers allocated to the LPV/RTV arm had significantly higher mean VL’s. Is this finding then not expected? Can the authors expand on other potential reasons why the mothers

would otherwise be affected by the type of peri-exposure prophylaxis their babies received? • Second paragraph not well worded, opening sentence too long. • Third paragraph, line 50: authors refer to a “report” compiled in Durban South Africa, kindly rephrase (is this a study? And what type? Size?) • Replace Ïn agreement with our findings”with “Similar to our study findings” • Final paragraph; line 19: Authors must comment on local guidelines as possible explanatory factor. Eg. In SA up until 2012 the department of health supported provision of free formula milk to HIV infected mothers who opted not to breastfeed. • Overall the discussion-section does not provide the reader with possible explanations / hypothesis about why their study showed particular findings. Instead it only discusses how study findings differ/correspond from other (limited) research on same topic. As title already reports the findings of the study, the authors could use discussion section to elaborate on possible explanatory mechanisms, as well as the implications of their findings. What would the role of peri-exposure prophylaxis for example be in South Africa where the revised Infant feeding guidelines/ HIV guidelines ensure that all pregnant or breastfeeding mothers are initiated on ARVs irrespective of WHO class/ CD4 count? Conclusion • Line 56: what is a better HIV infection rate? • Last sentence: add reference

REVIEWER

REVIEW RETURNED GENERAL COMMENTS

Shadrack Oiye University of Nairobi Institute of Tropical and Infectious Diseases (UNITID), Nairobi, Kenya 06-Oct-2017 1. This paper is relevant and could potentially add to the body of knowledge in support of breastfeeding in the context of HIV 2. There is need for clarity on which breastfeeding type is being linked to HIV progression. Is it EBF or predominant breastfeeding or any breastfeeding? In my opinion, for the purpose of demonstrating the relationship between breastfeeding and HIV progression, it is better to compare either the EBF vs HIV progression or any breastfeeding duration with HIV progression – with much preference to the former since it’s the current recommendation for infants 6 months and below. 3. Throughout the paper, it is important to stick to the relationship between breastfeeding (BF) and HIV progression and not divert to the HIV progression and BMI, hemoglobin concentration, HIV drug use and other maternal indicators. These ‘peripheral’ indicators can be the background data or for controlling for during analysis. Stick to the thesis of the paper. In my own opinion BMI or hemoglobin concentration Vs HIV progression could be separate journal papers – for instance. 4. Right from the abstract, it is pertinent to clearly mention that this paper extracted data from with a varying objective other than the objective in this paper 5. Based on objective of the paper, I expected to see clear tables on BF duration and CD4 cell count in different countries. This expectation is not satisfied and instead I find rather too large tables which are not easy for the reader to follow clearly the thought

process of the authors. 6. Is it possible to have the baseline and end line values on the same table? This would help in the interpretation of the data. As a reader interested in the topic, I would have wanted to see an analysis depicting the variations in HIV progression among those who breastfed for long and those who did for short time. This is not clear. 7. I was just wondering for instances in the table 2, why data for Burkina Faso, Uganda and Zambia were combined, rather than separate. 8. The tables in the paper seem to be extracted from the larger project report or students thesis. There are designed specific tables to journal publication. Without this, the tables become difficult to interpret and not focused to the objective. It is not possible for even the reader to draw a conclusion from the tables.

VERSION 1 – AUTHOR RESPONSE The reviewer(s)' comments to authors are given below:

Reviewer: 1 Reviewer Name: Marina Giuliano Institution and Country: Istituto Superiore di Sanità, Italy General Comment The issue addressed by this article is not new and was raised in some papers several years ago. However, more recent data have excluded any impact of breastfeeding on HIV disease progression (and breastfeeding up to 2 years is recommended in the most recent HIV guidelines). Also, the authors have recently published (Plos One 2017), a paper on the same patients of the same trial demonstrating that breastfeeding was not negatively correlated with the BMI (“No major change in mean BMI was seen in this cohort over a 50-week period during lactation”), partially overlapping the results of the present paper. Dear Reviewer, We are much grateful for your time and the interesting comments and suggestions you provided throughout the review process. We also agree with the general comment showing that the issue is not new and has been addressed by several previous studies. However, we believe that our contribution throuth the current paper remains meaningful in that the method was original and addressed thoroughly the question in one paper. To the best of our knowledge, it is the only paper where the method considered in the same analysis the three most important parameters assessing the HIV disease progression including the weight, the CD4 count and the HIV -1 viral load as well as the clinical staging of HIV-1 disease. The analysis was also original because it assessed the impact of the intensity (type (exclusive or not) and duration) of breastfeeding on the HIV-1 infected mothers within the same cohort of all lactating women instead of comparing breastfeeding to non-breastfeeding mothers. Finally, we hope that this study adds to the body of evidence on the topic and consolidate the knowledge being built around the effect of breastfeeding on HIV-1 infected mothers. Specific comments Abstract

Methods. The authors say that the analysis was carried out on “HIV -1 negative infants”. But the objective is to assess disease progression in “mothers”. Thanks. We have corrected the sentence so that it is in the as our objective statement. Line 18 : a multiple logistic regression model was “also” run…. Why “also” ? The description of the composite endpoint is not clear: at what time point were mother’s weight, CD4 cell count and HIV -1 clinical stage assessed ? We have deleted the word ‘also.’ On the other point, we agree that this is an important information that needs to be put in the abstract. The time points at which these variables have been assessed vary and it would take too many words to write in detail about each in the abstract which has a limit ed number (300) of words. Please refer to line 9-14 in the data management section (page 6). Results. In the model here the authors mention weight change, CD4 cell count and HIV -1 viral load, while the latter was not mentioned in the methods section. This has been corrected. Before combining the different variables into a composite endpoint, they have been analysed separately first. In this separate analysis, HIV -1 viral load was considered instead of HIV-1 stage. This statement has been omitted in the abstract. Also, the authors report data about the impact of EPBF but not about “any breastfeeding”. We agree that both outcomes needs to be reflected in the abstract. This issue is now solved. Lines 31-36. There is no indication on when the parameters were assessed. CD4 count at the end of follow-up ? 6 months ? 50 weeks ? Body mass index and hemoglobin, at baseline ? We are sorry we have had to leave out this information on time points for data collection. It was difficult to include it in an abstract with a maximum of 300 words. Please see lines 38-40 in the data management and analysis section (page 6). Lines 38-43. In the methods section the authors state that they assessed the role of BF duration on HIV progression but then here they mention the treatment arm (a finding, by the way, of difficult explanation). Actually the treatment arm was among the covariates we used to build the multivariable models. As we stated in the objective of this abstract, the participants were included in an RCT. In the m ethod section of the abstract, we have mentioned the treatment arm of the RCT (line 17-18). The detail regarding the RCT and the treatment arm is provided on page 5 lines 32-35 and page 6 line 38-41. Conclusions. Here the authors mention “mother’s weight, CD4 cell count and HIV-1 viral load change or HIV-1 disease progression”. However, it is not clear what “change” means (comparison between baseline and the end of follow-up ?). Follow-up time is never reported. Thanks. The word change is now replaced with an explanatory statement: “Breastfeeding was not a risk factor for a faster progression of HIV-1 disease in mothers of this cohort with a baseline CD4 cell count >350 cells/µl.” Introduction Page 3. Lines 17-18. Again here mother’s weight, CD4 cell count, HIV-1 viral load (and not disease stage) seem to be the endpoints of the study. We agree with the comment. Actually we have considered HIV-1 viral load in the analysis using separately the dependent variables that were to be included in the composit e endpoint. At the stage of combining these endpoints to get the composite endpoint we used HIV stage. This variable was easier to dichotomize than the HIV viral load which cutoff point was not easy to set. We have done our best to make this clearer in the text. Page 3. Line 33. The authors can report just only one reference here. Reference n. 13 refers to HIV positive breastfeeding women. OK done.

Page 3. Line 57 and Page 4. Lines 4-6. The references cited by the authors are at least 10-year old when the debate about this issue was terminated with the conclusion that breastfeeding was not harmful. We agree that the data are old. However we thought that these are important «historical» publications that cannot be overlooked when dealing with the topic of the impact of breastfeeding on HIV-infected mothers health. Methods Page 6. Line 10. The authors mention here “the first screening visit” (is it the same as “screening one” reported later ?). Is “the first screening visit” during pregnancy (what week of gestation ?) or after partum ? It should be specified. The first screening visit was the screening one. It was held between 28 and 40 weeks of gestational age. We have now specified clearer in the manuscript in the “data management and analysis paragraph.” Page 6. Lines 14-15. “The dependant variables were mothers’ weight, CD4 cell count and HIV-1 viral load”. At what time point ? For example “weight loss” is measured at 26 weeks; the other parameters ? The dependent variables (mothers’weight, CD4 cells count and HIV-1 viral load were considered at the different times of their measurement as indicated in the text in page 6 line 9-14. The other parameters were considered at the entry point or at baseline (during screening one: body mass index, education level, marital status, hemoglobin concentration ) or on day 7 post partum (mode of delivery, breastfeeding initiation time and the baby’s gender, and the trial arm). We have specified these details in the text. Page 6. Line 18. The authors say that “mothers’ weights were not available for week 50” but in line 12 they had reported that weight was assessed also at week 50. According to the protocol, the mothers’weights were planned to be measured at week 50; however, in the reality, we had almost no data on weight (missing data) at this time. Maybe because mothers were allowed aslo to wean their baby from week 38 and onward. Results Page 8. Line 15. “important” is not appropriate to describe viral suppression. Which could be the reason for a greater viral suppression in South Africa ? We have rephrased the sentence in page 8 line 15. We have not a clear reason why viral suppression was greater in South Africa. Maybe this was random just related to the recruitment though the randomisation, or maybe it refletcts a true country difference due to a better socio-economic status and better equipped health system. Table 1 illustrates the country differences. Table 1. Baseline characteristics. When is baseline for this study ? Also, since the Table contains many data that are not “baseline” ( i.e. mean EPBF duration etc) the title s hould be changed. First two rows: how can they be different ? Aren’t AZT and 3TC administered together ? In general, the way the data are reported in the Table is not clear. The authors report the mean with 95% CI. However, does the comment reported in lines 13-16 (pag. 8) refer to statistically significant differences ? We have modified the title of table 1 according to your comment. AZT and 3TC are usually administered together. However in our data collection tool (the questionnaire), the investigators had to ask specifically and separately the question for AZT and 3TC. We suspect that they may have been some reporting errors, creating these slight differences. Regarding the baseline data, no significance test has been run because for us it would not make much sense as far as the study was not designed for this purpose. We have just «eye-balled» and made the comment. Table 2. The title reports “mother’s weight, CD4 cell counts and HIV -1 viral load “change». As I said before, the definition of change is not clear.

We have used the term «change» throughout the text to avoid being predictive of the direction (increase or decrease) the clinical and biological parameters would take. « Change» was for us an enough neutral term that we deemed fit for our scientific context. We meant by «change» any modification (decrease or increase» associated with breastfeeding in the parameters at stake. Both Table 2 and Table 3 are very long and difficult to read. Pag. 24. Lines 10-24. The authors here report associations between EPBF duration and different parameters, findings of difficult interpretation. We have rearranged the sentences to make the comprehenstion easier. We have also splitted the larger tables into multiple smaller ones to make the reading easier Pag. 24. Lines 36-58. Same as comment above. We have also rearranged the sentences and the tables to make the comprehenstion easier.

Discussion Pag. 25. Lines 12-17. What is the rational explanation of this finding ? We do not have any clear explanation to this finding. Pag. 25. Lines 24-29. Findings of difficult explanation. We have now explained in the discussion the following: “This difference in our finding may be explained by the difference in our categorization of the education variable. In our study less educated participants included only women with primary school level, meaning around six years of schooling. Therefore, the results of the two studies are not realy comparable.” Pag. 25 Lines 41-58. The authors report in different ways the findings of a single study (ref. 33) in a confused paragraph. Thank you for the comment. We have re-written and improved the paragraph. Pag. 26. Line 12. As I said, ref. 35, dated 2005, concluded that breastfeeding was not harmful, in terms of mortality, to the mothers. However, the authors in the following paragraph mention ref. N. 18 which is dated 2001 (that is before ref. 35). Thank you for the comment. We have re-written and improved the paragraph. Pag. 26. Line 56. “HIV-1 infection status”. Is it viral load ? We meant by HIV-1 infection status, HIV-1 disease progression. This has been corrected in the text. Reviewer: 2 Reviewer Name: Dr Eileen Thomas Institution and Country: Stellenbosch University, Cape Town, South Africa Thank you for opportunity to review aforementioned paper. The authors address a clinically relevant question on a very important public health matter: Does a prescribed behavior (exclusive breastfeeding) worsen clinical outcomes (in this paper: HIV-1 disease progression) in non-immunocompromised HIV-1 infected mothers. Although the paper gives a fair overview of how they made this conclusion, they are less successful in explaining (or offering possible explanations as to how) this occurs. Furthermore; the implications of the study findings aren’t outlined. Dear reviewer, thanks for your comments and review. We have now tried to improve on our explanation. Comments 1.) Abstract

• The Objective is poorly phrased; consider: “We have asses sed HIV disease progression among HIV-1 positive mothers in relation to duration of any or exclusive breastfeeding….” Thanks so much for the suggestion. This has been considered in the abstract. • The analysis was completed on….. OK. We have also considered the improvement suggested • Conclusion is poorly phrased. In which direction (eg decreases) or manner (eg fluctuation) was breastfeeding not a risk factor? OK. We have improved the phrasing of the conclusion. 2.) Strength and limitations • Remove “typically” representive • Remove “slightly” biased OK Done. 3.) Introduction • Line 48- expand on most recent WHO guidelines: it is not just in contexts where not safe…also affordable, available…. OK Done. • Line 52- add: HIV disease progression AS assessed … OK Done • Page 4, Line 8-9: measured by weight-changes, CD4 cell count…. In this sentence, the word «change» applies also to CD4 cell count and HIV -1 viral load. Because the «progression» supposes something dynamic, we wanted to as sess this movement by aprreciating the change in the above-cited parameters. 4.) Methods • Page 5, line 16: antenatal (not ante-natal) OK Done • Ethics: add ethics approval numbers OK Done

5.) Results • Table 1b: South Africa had markedly lower rates of vaginal deliveries vs other countries. Can the authors kindly elaborate on possible reasons for this occurrence and how this may have skewed findings in stratified analysis? In the years 2000, studies were published demonstrating that elective c -section before the labor and before the rupture of membranes added protection against HIV transmission to the new born [1 2]. The lower rates of vaginal deliveries in South Africa was likely due to the country policies (influenced by the scientific evidence) which supported HIV-infected women toward delivering HIV-free babies. This support included, free formulas and probably scheduled C-section for the HIV-infected pregnant women and mothers. Why the rest of the countries did not implement the same policy is certainly a matter of affordability and availability of local resources. Another reason is that C-section rate is «recklessly high» in South Africa where up to 90% of pregnant women deliver through this method in private hospitals (The Guardian https://www.theguardian.com/world/ 2014/sep/24/caesarean-sectionsouth-africa [Accessed on 27 October 2017]. This practise may have spilled over but at a lesser extent into public health facilities. We believe this practice has not skewed our results, since these C-section deliveries were not medically indicated at first hand, at least not based on a vaginal delivery risk, then they are not done

on women with poorer health status. Actually, South Africa women had the lowest mean HIV viral load and the highest mean BMI. • Page 24, line 1: non-significant (not was insignificant) OK Done. 6.) Discussion • One of the main study findings are that mothers whose babies were allocated to the LPV/RTV arm were found to have accelerated HIV-1 disease progression. Yet in Results (page 24, line 19-21) the authors state that mothers allocated to the LPV/RTV arm had significantly higher mean VL’s. Is this finding then not expected? Can the authors expand on other potential reasons why the mothers would otherwise be affected by the type of peri-exposure prophylaxis their babies received? Actually, we do not have any explaination for this finding. In another paper, we found that children allocated to lopinavir/ritonavir were most likely to stop exclusive breastfeeding earlier. We thought that the mothers’ health status might be the cause. However the data did not confirm this hypothethis. Finally, we think that this may be a random finding and have mentioned that in the discussion. • Second paragraph not well worded, opening sentence too long. We have improved this, shortening the sentencing and clarifying the ideas. • Third paragraph, line 50: authors refer to a “report” compiled in Durban South Africa, kindly rephrase (is this a study? And what type? Size?) OK Done. • Replace Ïn agreement with our findings”with “Similar to our study -findings” OK Done. • Final paragraph; line 19: Authors must comment on local guidelines as possible explanatory factor. Eg. In SA up until 2012 the department of health supported provision of free formula milk to HIV infected mothers who opted not to breastfeed. Thanks for your suggestion and the possible explanation you provided. Trying to respond to another reviewer’s comment, we ended up deleting this section. • Overall the discussion-section does not provide the reader with possible explanations / hypothesis about why their study showed particular findings. Instead it only discusses how study findings differ/correspond from other (limited) research on same topic. As title already reports the findings of the study, the authors could use discussion section to elaborate on possible explanatory mechanisms, as well as the implications of their findings. What would the role of peri-exposure prophylaxis for example be in South Africa where the revised Infant feeding guidelines/ HIV guidelines ensure that all pregnant or breastfeeding mothers are initiated on ARVs irrespective of WHO class/ CD4 count? Thanks so much for the suggestion. We elaborated more on the meaning of our findings and the possible application of the infant peri-exposure prophylaxis in the context of South Africa and the WHO 2016 new guidelines. Conclusion • Line 56: what is a better HIV infection rate? We’ve improved the sentence. • Last sentence: add reference OK Done. Reviewer: 3 Reviewer Name: Shadrack Oiye

Institution and Country: University of Nairobi Institute of Tropical and Infectious Diseases (UNITID), Nairobi, Kenya Please leave your comments for the authors below 1. This paper is relevant and could potentially add to the body of knowledge in support of breastfeeding in the context of HIV 2. There is need for clarity on which breastfeeding type is being linked to HIV progression. Is it EBF or predominant breastfeeding or any breastfeeding? In my opinion, for the purpose of demonstrating the relationship between breastfeeding and HIV progression, it is better to compare either the EBF vs HIV progression or any breastfeeding duration with HIV progression – with much preference to the former since it’s the current recommendation for infants 6 months and below. Dear reviewer, Thanks so much for your review and input. The study was set to analyse both exclusive and any breastfeeding versus HIV progression. However, with regard to the evidence that in term of HIV transmission to the infant, there is no difference between exlusive and predominant breastfeeding, we have decided to merge exclusive and predominant breastfeeding. The advantage was methodological avoiding categories with small sample size in the analysis. There were very few cases of predominant breastfeeding as explained in the methods (data management and analysis paragrph). We agree that it is better to test the impact of exclusive breastfeeding on HIV progression in general, however, if we had categorised the predomantly breastfed children as ‘mixed’ fed rather than together witht the exclusive breaastfeeding we considered that too strict compared to : a) what we know about clinical risk ; b) comparison to other studies which often just use one 24-hour recall and have lots of misclassification issues ; but most importantly c) operational issues – if we now find that EPBF is safe for themselves and the baby, we avoid that women «stop » breastfeeding when they have to practice predominant breastfeeding for some reasons (other’s care due to short travels and immediate obligations). 3. Throughout the paper, it is important to stick to the relationship between breastfeeding (BF) and HIV progression and not divert to the HIV progression and BMI, hemoglobin concentration, HIV drug use and other maternal indicators. These ‘peripheral’ indicators can be the background data or for controlling for during analysis. Stick to the thesis of the paper. In my own opinion BMI or hemoglobin concentration Vs HIV progression could be separate journal papers – for instance. We totally agree with you and we have published a previous paper where we dealt with the issue of BMI and hemoglobin change according to the breastfeeding modality. In the current paper, we have tested the change in mothers’weight (not BMI) considering a threshold in the weight decrease as an indicator to assess HIV progression. Still in this paper, we have used hemoglobin concentration as a controlling variable not as a dependant variable. So even if the results may seem redundant, they are presented from another view point. For us it is about sub groups analysis before emphasizing on the main point which is HIV progression. 4. Right from the abstract, it is pertinent to clearly mention that this paper extracted data from with a varying objective other than the objective in this paper OK. We have corrected this gap in the abstract 5. Based on objective of the paper, I expected to see clear tables on BF duration and CD4 cell count in different countries. This expectation is not satisfied and instead I find rather too large tables which are not easy for the reader to follow clearly the thought process of the authors. We are realy sorry that we were not able to build smaller tables. We had to choose between smaller and numerous tables or larger and limited number of tables. We chose the latter in the first round. However, considering the reviewers’ comments, we’ve reduced the size of the tables and split them. Regarding breastfeeding duration, we voluntarily skept this data because it was at stake in another paper where we described the feeding patterns of the mothers participating in our cohort.

6. Is it possible to have the baseline and end line values on the same table? This would help in the interpretation of the data. As a reader interested in the topic, I would have wanted to see an analysis depicting the variations in HIV progression among those who breast fed for long and those who did for short time. This is not clear. Thank you for the suggestion. The way we designed the study and conducted the analysis and the nature of our data made it difficult to present the results in the way you suggested. Regarding HIV-1 disease progression, we aimed at assessing risk of progression according to the duration of the type of breastfeeding. Categorizing our cohort into two groups of «short breastfeeder» Vs «long breastfeeders» was also difficult. In that cohort, except South Africa, most participants complied with the counseling’s advice and followed the guidance to breastfeed. Instead, the linear mixed-effect models made it possible to assess month after month the excess risk per women while breastfeeding. 7. I was just wondering for instances in the table 2, why data for Burkina Faso, Uganda and Zambia were combined, rather than separate. We build two strata with the data: one stratum merging data from Burkina Faso, Uganda, Zambia and another one with data from South Africa alone. The rational is that for us South Africa presented quite different economic, socio-demographic and cultural context than the three other countries. Doing so we avoided the risk of interactions that might have hidden interresting relations. 8. The tables in the paper seem to be extracted from the larger project report or students thesis. There are designed specific tables to journal publication. Without this, the tables become difficult to interpret and not focused to the objective. It is not possible for even the reader to draw a conclusion from the tables. Thanks for the comment. We have reduced the size of the tables 2 and 3. It is true that the first author is working on a PhD-project, however, the tables are not drawn from any report and are originally written for this submission. 1. Maguire A, Sánchez E, Fortuny C, et al. Potential risk factors for vertical HIV -1 transmission in Catalonia, Spain: the protective role of cesarean section. AIDS 1997;11:1851–57 2. Kind C, Rudin C, Siegrist C, et al. Prevention of vertical HIV transmission: additive protective effect of elective Cesarean section and zidovudine prophylaxis. AIDS 1998;12:205–10

VERSION 2 – REVIEW

REVIEWER REVIEW RETURNED GENERAL COMMENTS

Marina Giuliano Istituto Superiore di Sanità, Rome, Italy 14-Nov-2017 The paper has generally improved and the authors have addressed the issues that I had raised. Some minor clarifications are still needed : TITLE The title has been changed and it is clearer now however, I would remove the last part (“a cohort design”). ABSTRACT Line 14. “were” should be “was”. Lines 25-26. Since this finding has no clear explanation and the authors suggest in the discussion that it may be due to chance, I would remove it from the results of the abstract. Lines 27-28. The authors report among the most relevant results of the paper the following sentence: “In South Africa any breastfeeding

duration was associated with an increase of the HIV-1 viral load”. However, in the “CONCLUSION” section of the main paper they do not report this finding but they include: ” A higher education level was also a factor associated with a slower HIV-1 disease progression” (and it refers to any breastfeeding). I therefore would substitute the sentence in lines 27-28 of the abstract with this sentence, both to be consistent with the conclusion of the main paper and also because I think it is a more relevant result. This finding should also be included in the discussion section where the impact of the education level was mentioned only for body weight. “Strenghts and limitations of this study”. Pag. 3. To address one of the issues that I had raised the authors included in this section the explanation for the discrepancy between AZT and 3TC administration. However, since this is a minor issue, I would not include it in this section that is a summary of the relevance of the study, while it could be only mentioned either in the method section or as a simple footnote to Table 1a. RESULTS Pag. 27. Lines 36-37 and Pag. 28 lines 1-4. I would not mention these results about treatment arms in the different strata since they have no rationale explanation. CONCLUSION Pag. 30. Line 35. “weight” should be “BMI”

REVIEWER

REVIEW RETURNED GENERAL COMMENTS

Shadrack Oiye University of Nairobi Institute of Tropical and Infectious Diseases, Kenya 27-Nov-2017 1. I have reviewed the paper for second time and below are my comments. My new comments are in bold. 2. This comment still stands and I am convinced this is the way to go: There is need for clarity on which breastfeeding type is being linked to HIV progression. Is it EBF or predominant breastfeeding or any breastfeeding? In my opinion, for the purpose of demonstrating the relationship between breastfeeding and HIV progression, it is better to compare either the EBF vs HIV progression or any breastfeeding duration with HIV progression – with much preference to the former since it’s the current recommendation for infants 6 months and below. There is potentially a possibility of two papers – one is relationship between any breastfeeding with HIV progression and another paper on EBF and progression. This is because the findings/massages need to come out clearer. 3. Throughout the paper, it is important to stick to the relationship between breastfeeding (BF) and HIV progression and not divert to the HIV progression and BMI, hemoglobin concentration, HIV drug use and other maternal indicators. These ‘peripheral’ indicators can be the background data or for controlling for during analysis. Stick to the thesis of the paper. In my own opinion BMI or hemoglobin concentration Vs HIV progression could be separate journal papers – for instance. The readers could benefit from having a one table specifying the background characteristics, then one ot two more tables with simple depiction of the relationship between breastfeeding and HIV progression. 4. Based on objective of the paper, I expected to see clear tables on BF duration and CD4 cell count in different countries. This expectation is not satisfied and instead I find rather too large tables which are not easy for the reader to follow clearly the thought

process of the authors. 5. Is it possible to have the baseline and end line values on the same table? This would help in the interpretation of the data. As a reader interested in the topic, I would have wanted to see an analysis depicting the variations in HIV progression among those who breastfed for long and those who did for short time. This is not clear. 6. I was just wondering for instances in the table 2, why data for Burkina Faso, Uganda and Zambia were combined, rather than separate. 7. The tables in the paper seem to be extracted from the larger project report or students thesis. There are designed specific tables to journal publication. Without this, the tables become difficult to interpret and not focused to the objective. It is not possible for even the reader to draw a conclusion from the tables.

VERSION 2 – AUTHOR RESPONSE

Editorial Requirements: - We would like to suggest the following title: "HIV-1 disease progression in immune-competent HIV-1 infected and breastfeeding mothers participating in the ANRS12174 clinical trial in Burkina Faso, South Africa, Uganda and Zambia: a cohort study OK. Agree. Done

Reviewer(s)' Comments to Author:

Reviewer: 1 Reviewer Name: Marina Giuliano Institution and Country: Istituto Superiore di Sanità, Rome, Italy Some minor clarifications are still needed : Dear reviewer, We are grateful for the careful review of our manuscript for the second time. TITLE The title has been changed and it is clearer now however, I would remove the last part (“a cohort design”). Thank you for the suggestion. However, the editorial team suggested another title that we have adopted. They suggest to replace in the title, « design » by « study » ABSTRACT Line 14. “were” should be “was”. Done Lines 25-26. Since this finding has no clear explanation and the authors suggest in the discussion that it may be due to chance, I would remove it from the results of the abstract. Done Lines 27-28. The authors report among the most relevant results of the paper the following sentence: “In South Africa any breastfeeding duration was associated with an increase of the HIV -1 viral load”. However, in the “CONCLUSION” section of the main paper they do not report this finding but they

include: ” A higher education level was also a factor associated with a slower HIV -1 disease progression” (and it refers to any breastfeeding). I therefore would subs titute the sentence in lines 2728 of the abstract with this sentence, both to be consistent with the conclusion of the main paper and also because I think it is a more relevant result. Done This finding should also be included in the discussion section where the impact of the education level was mentioned only for body weight. Done “Strengths and limitations of this study”. Page. 3. To address one of the issues that I had raised the authors included in this section the explanation for the discrepancy between AZT and 3TC administration. However, since this is a minor issue, I would not include it in this section that is a summary of the relevance of the study, while it could be only mentioned either in the method section or as a simple footnote to Table 1a. Done RESULTS Pag. 27. Lines 36-37 and Pag. 28 lines 1-4. I would not mention these results about treatment arms in the different strata since they have no rationale explanation. Done CONCLUSION Pag. 30. Line 35. “weight” should be “BMI” Dear reviewer, I wanted to mention that in this paper, we used the mothers’weight as one of the outcome variables. Though the conclusion could apply as well for the mothers’BMI, we think for consistency reasons that the «weight» suits better here.

Reviewer: 3 Reviewer Name: Shadrack Oiye Institution and Country: University of Nairobi Institute of Tropical and Infectious Diseases, Kenya Please state any competing interests: None Please leave your comments for the authors below I have reviewed the paper for second time and below are my comments. My new comments are in bold. Dear reviewer, thank you for your careful review one more time. 2. This comment still stands and I am convinced this is the way to go: There is need for clarity on which breastfeeding type is being linked to HIV progression. Is it EBF or predominant breastfeeding or any breastfeeding? In my opinion, for the purpose of demonstrating the relationship between breastfeeding and HIV progression, it is better to compare either the EBF vs HIV progression or any breastfeeding duration with HIV progression – with much preference to the former since it’s the current recommendation for infants 6 months and below. There is potentially a possibility of two papers – one is relationship between any breastfeeding with HIV progression and another paper on EBF and progression. This is because the findings/massages need to come out clearer. Dear reviewer, In this paper, we presented first our baseline characteristics (table 1a and 1b). Then we looked for association between our different outcome variables (mothers’weight, CD4 cells count, HIV viral load and the HIV disease progression which is a composite endpoint. In these analyses we ran unadjusted analysis which is a step in detecting variables (main independent and covariables) potentially truly related to the exposure. So our main independent variables were exclusive or predominant breastfeeding (EPBF) and any breasteeding in two separate models. We merge exclusive and

predominant breastfeeding because we had very small number of predominant breastfeeding and the practice was occasional meaning that mothers were mainly implementing exclusive breastfeeding and from time to time they added some liquid items. Another important rational for merging these variables was that in the literature, there was not significant difference between exclusive and predominant breastfeeding, at least with regard to HIV transmission. Further we ran multivariate analysis to consider confounding and interactions that may hinder a true relationship. Regarding your concern we agree that we have to make clearer the relationship between HIV1disease progression and the type of breastfeeding. We humbly believe that this was also our objective in that study: in the first sentences or our discussion, we emphasized on it: «Considered separately, there appeared to be no variations in the mothers’ weight, CD4 cell count and HIV -1 viral load related to EPBF or any breastfeeding. The same conclusion applied to these outcomes combined in a composite endpoint representing HIV-1 disease progression.” In the conclusion, we stated it again: “Breastfeeding whatever the type (exclusive or any) as far as this study can conclude was not a risk factor for the HIV-1 infected mothers weight, CD4 cell count, and HIV-1 viral load change, or HIV-1 disease progression, keeping in mind that all the participants had a baseline CD4 cell count >350 cells/ul”. These statements are supported by our data and analyses. 3. Throughout the paper, it is important to stick to the relationship between breastfeeding (BF) and HIV progression and not divert to the HIV progression and BMI, hemoglobin concentration, HIV drug use and other maternal indicators. These ‘peripheral’ indicators can be the background data or for controlling for during analysis. Stick to the thesis of the paper. In my own opinion BMI or hemoglobin concentration Vs HIV progression could be separate journal papers – for instance. The readers could benefit from having a one table specifying the background characteristics, then one ot two more tables with simple depiction of the relationship between breastfeeding and HIV progression. We have to clarify that BMI and haemoglobin concentration were outcome variables for a previous paper [1]. In the current paper, we just introduced them as co-variables to control for confounding. So they are actually just background variables as you suggested. We also believe that using the mutlivariate linear mixed effect model analysis suited more to our purpose than a simple 2x2 tables which was anyway done in the unadjusted analyses. We analysed separately mothers’weight, CD4 cells count, HIV-1 viral load as separate outcome variables. Then these variables were again used in the composite outcome variable defining HIV-1 disease progression. 4. Based on objective of the paper, I expected to see clear tables on BF duration and CD4 cell count in different countries. This expectation is not satisfied and instead I find rather too large tables which are not easy for the reader to follow clearly the thought process of the authors. Dear reviewer, unless we did not understand correctly your expectation, we think it has been met in our table 2b and 3b where EPBF and any breastfeeding duration in months are presented with CD4 cells count change. We could see for instance for the stratum 1 (South Africa) that we have a mean decrease of 1 CD4 cell per month of EPBF in the unadjusted analysis and a decrease of 6.4 CD4 cells per month of EPBF in the adjusted analysis. Of course these variations were not statistically significant. We believe that presenting the results as per your suggestion won’t add anything new. We are sorry again if our tables are too large and overloaded. 5. Is it possible to have the baseline and end line values on the same table? This would help in the interpretation of the data. As a reader interested in the topic, I would have wanted to see an analysis depicting the variations in HIV progression among those who breastfed for long and those who did for short time. This is not clear. HIV-1 disease progression was a two-category (yes-no) variable. We were only able to use a logistic regression. Doing so we were only able to present odd ratios. Again, as presented, we actually compared short breastfeeders against long breastfeeders with the specificity that we compared each time two groups with a difference of one month in breastfeeding duration. We could as well choose to dichotimize the breastfeeding duration variable into short and long duration groups as suggested.

However, in addition to the subjectivity of the cut-off point between these two groups, we are afraid this categorization would not add much to our findings. 6. I was just wondering for instances in the table 2, why data for Burkina Faso, Uganda and Zambia were combined, rather than separate. In the method section, we explained that «These multivariate analyses were run taking all participants together and also as 2 strata comprising South African mothers (stratum 1) and Burkina Faso, Uganda and Zambia together (stratum 2) because South Africa presented important socio-economic, cultural and demographic differences compared with the other countries.” 7. The tables in the paper seem to be extracted from the larger project report or students thesis. There are designed specific tables to journal publication. Without this, the tables become difficult to interpret and not focused to the objective. It is not possible for even the reader to draw a c onclusion from the tables. We are sorry if our tables give the feeling that they were extracted from a larger project report of students thesis. This is not the case. We extracted the data from the ANRS12174 clinical trial database, analysed them as detailed in the method section to obtain the outputs we displayed in these tables in compliance with BMJ requirements. We are also sorry that the tables may be difficult to read. We have tried our best to reduce them to get smaller tables in the current versions. We are afraid that splitting the tables again or cutting more data may render our results meaningless. We beg your indulgence about this. 1.

Somé E, Engebretsen I, Nagot N, et al. Changes in body mass index and hemoglobin concentration in breastfeeding women living with HIV with a CD4 count over 350: Results from 4 African countries (The ANRS 12174 trial). PloS one 2017;12(5) doi: 10.1371/journal.pone.0177259[published Online First: Epub Date]|.

VERSION 3 – REVIEW REVIEWER REVIEW RETURNED GENERAL COMMENTS

Marina Giuliano Istituto Superiore di Sanità, Italy 19-Dec-2017 The authors have addressed all the issues raised and no further modifications are needed.