Literature DB >> 36084125

Methodology to estimate natural- and vaccine-induced antibodies to SARS-CoV-2 in a large geographic region.

Stacia M DeSantis1, Luis G León-Novelo1, Michael D Swartz1, Ashraf S Yaseen1, Melissa A Valerio-Shewmaker2, Yashar Talebi1, Frances A Brito1, Jessica A Ross1, Harold W Kohl3, Sarah E Messiah4,5, Steve H Kelder6, Leqing Wu1, Shiming Zhang1, Kimberly A Aguillard1, Michael O Gonzalez1, Onyinye S Omega-Njemnob6, David Lakey7, Jennifer A Shuford8, Stephen Pont6,8, Eric Boerwinkle1.   

Abstract

Accurate estimates of natural and/or vaccine-induced antibodies to SARS-CoV-2 are difficult to obtain. Although model-based estimates of seroprevalence have been proposed, they require inputting unknown parameters including viral reproduction number, longevity of immune response, and other dynamic factors. In contrast to a model-based approach, the current study presents a data-driven detailed statistical procedure for estimating total seroprevalence (defined as antibodies from natural infection or from full vaccination) in a region using prospectively collected serological data and state-level vaccination data. Specifically, we conducted a longitudinal statewide serological survey with 88,605 participants 5 years or older with 3 prospective blood draws beginning September 30, 2020. Along with state vaccination data, as of October 31, 2021, the estimated percentage of those 5 years or older with naturally occurring antibodies to SARS-CoV-2 in Texas is 35.0% (95% CI = (33.1%, 36.9%)). This is 3× higher than, state-confirmed COVID-19 cases (11.83%) for all ages. The percentage with naturally occurring or vaccine-induced antibodies (total seroprevalence) is 77.42%. This methodology is integral to pandemic preparedness as accurate estimates of seroprevalence can inform policy-making decisions relevant to SARS-CoV-2.

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Year:  2022        PMID: 36084125      PMCID: PMC9462720          DOI: 10.1371/journal.pone.0273694

Source DB:  PubMed          Journal:  PLoS One        ISSN: 1932-6203            Impact factor:   3.752


Introduction

It is increasingly important to estimate the percentage of individuals in the US who have circulating anti-SARS-CoV-2 antibodies. People obtain protection through either natural infection with SARS-CoV-2 or full vaccination, and seroprevalence is the combination of these two avenues. Typically, an estimate of seproprevalence is obtained using mathematical modeling and simulation, which require inputs such as duration of immunity once infected, viral reproduction rate, population mixing, and additional factors [1-5]. However, the contributions of these inputs are still not fully known. For example, researchers are unsure of the duration of immunity afforded by natural infection or vaccination, and possible T-cell cross-reactivity. Further, continual emergence of SARS-CoV-2 variants make the picture even less clear [6-8]. Recent research suggests neutralizing and nucleocapsid antibodies to SARS-CoV-2 persist for at least 5–6 months [9-12] or possibly longer [13], and that re-infection risk is low in the several months after initial infection [14]. This resultant expected reduction in viral spread from these assumptions has inspired the idea of a path to normality. [15]. Given the above most current prevailing assumptions that: 1. Reinfection with COVID-19 within a few months is rare [16]; 2. Antibodies from natural infections typically last at least 5 months and cross-reactivity of serological tests is rare [11, 12, 17, 18]; and, 3. Vaccination produces a robust and reasonably long-term antibody response, making it possible to estimate regional seroprevalence as a combination of detection of natural antibodies, and state-level vaccination data [19]. The goal of this report is both to demonstrate this estimation process using a prospectively designed serological survey, as well as to provide the overall seroprevalence. To this end, we first estimate period seroprevalence over 1-week intervals from blood specimens collected prospectively from 88,605 community-based participants throughout Texas. We then compute a census age-adjusted seroprevalence estimate based on serum samples, and combine this with the Texas Department of State Health Services (DSHS) de-identified population-level vaccination counts https://www.arcgis.com/apps/dashboards/45e18cba105c478697c76acbbf86a6bc. Notably, the approach is not limited to the current pandemic; it is applicable to any infectious disease.

Methods

Participants and study design

The Texas Coronavirus Antibody REsponse Survey (Texas CARES) initiative has been previously described [20-22]. Briefly, Texas CARES is a prospective convenience sample of adult retail/business employees, K-12 and university educators and university students, those attending Health Resources and Services Administration (HRSA)- designated federally qualified health centers (FQHCs), and children 5–17 years, all of whom agreed to longitudinal monitoring of SARS-CoV-2 antibody status every three months (three time points) from 10/1/2020–10/31/2021. All protocols were reviewed and approved by the University of Texas Health Science Center’s Committee for the Protection of Human Subjects, and were also deemed public health practice by the Texas Department of State Health Services IRB. All adults consented electronically to be in the study, and children under 18 either consented or assented to be in the study. The catchment area for the cohort study was the entire state of Texas. Recruitment efforts were taken to enroll rural and urban participants spanning the state. More details about the study are publicly available on the Texas CARES dashboard [23].

Serological assay and state vaccination records

Antibody status was determined using the Roche Elecsys® Anti-SARS-CoV-2 (qualitative) assay detection of antibodies against SARS-CoV-2 nucleocapsid (N) protein, hereafter referred to as “Roche N-test”. Based on Roche guidance, a positive result was assumed to be indication that natural infection had occurred. The test has a sensitivity (95% confidence interval, CI) of 99.5% (97.0,100.0) and specificity of 99.82%(99.69, 99.91)≥14 days after infection. De-identified population level daily vaccination data (2 doses for mRNA vaccines or 1 dose for Johnson and Johnson vaccine) by age group were obtained from Texas Department of State Health Services (DSHS). As of Oct 31, 2021 55.9% (8.65 million) Texans received at least 2 doses Pfizer, 36.4% (5.64 million) received at least 2 doses of Moderna, and 7.7% (1.19 million) received at least one dose of Johnson and Johnson. Given this breakdown, our results largely reflect mRNA-induced antibodies. https://data.cdc.gov/Vaccinations/COVID-19-Vaccinations-in-the-United-States-Jurisdi/unsk-b7fc/data, Accessed July 13, 2022.

Statistical methods

We estimate the following components from the data, (1) presence of antibodies from natural infection, (2) presence of antibodies from complete vaccination (it is assumed full vaccination results in antibodies in all individuals), and (3) total antibodies (natural- or vaccine-induced antibodies). Natural antibody period seroprevalence is calculated at a given time interval of Texas CARES, while vaccine-induced antibodies are assumed known, as recorded by DSHS. A 1-week interval was deemed appropriate given the participant accrual rate into Texas CARES and disease wave fluctuations. Within this interval, we assume serological status from prior infection and vaccine status are not independent events. This assumption is very well-supported by the data, which as of October 31st indicate 16.52% of those with reported prior documented COVID-19 disease are vaccinated, versus 80.88% without prior documented COVID-19. Our data and other research [24, 25] support that presence of natural and vaccine-induced antibodies are very likely not independent events.

Calculating total antibodies to SARS-CoV-2 in Texas

Let H denote the total number of census age groups, h = 1, …, H. Assume we have a serological sample and true vaccination data for T weeks. Let t index the time window (week), where t = 1, …, T. Now define: ν: Vaccination proportion in age group h at week t (provided by state records). Since the vaccination status is cumulative, ν ≤ ν…≤ν for h = 1, …, H, and ν is known with certainty. η: Proportion with natural antibodies in age group h at week t. This is unknown but is estimated cross-sectionally using the Roche N-test from Texas CARES. w: Proportion of the Texas population in age group h. Thus, w is also known, and ∑ w = 1. The rate in time window t (defined as having received the vaccine or testing positive for antibodies in the time window) in age group h is given below, where “natural” refers to antibodies detected in the sample from natural infection and “vaccine” refers to antibodies produced by vaccination, fully known from state records, In Eq (1) above, for brevity, we omit the text “in group age h at week t”. The definition of This implicitly assumes the probability is equal across all weeks, t = 1, …, T. Also notice that the proportion of the population with both natural- and vaccine- induced antibodies is easily estimated as (1 − κ)ν, so a mathematically equivalent expression to Eq (1) is which may appear more intuitive: the total antibody rate is equal to the sum of the natural- and vaccine-induced antibody rates in a time interval, minus their overlap. Thus the estimated population seroprevalence at week t is, and the total rate (natural or vaccine induced) at week t in the population is, where ι is given in Eq (1). The population proportion with both natural and vaccine-induced antibodies is, In order to estimate SPR and IR we must estimate η and κ. We show these steps in the following subsubsection. We also note that had we assumed independence between natural- and vaccine-induced antibodies, κ = 1 − η, as expected.

Estimation of parameters for calculation of total antibodies

We estimate κ and η using the Roche N-test results. First, κ is estimated using the information from all T = 43 study weeks since January 1, 2021, as the following sample proportion, and η is initially estimated as, Once we have (and the denominator in the Eq (6) above) we compute the isotonic version (across index t) of , such that for h = 1, …, H. See S.1. in S1 Appendix details of this calculation. The isotonic estimate of η is appropriate here because it reflects the fact that seroprevalence should not decrease over a short time interval (even though its raw estimate can decrease due to expected sampling error in a small window, t). Once these estimates are obtained, we compute the estimates of SPR and IR, called and , by substituting the values of and into Eqs (3) and (4). Construction of a 95% confidence interval for is based on that for a proportion from a stratified design in which the outcome variable is binary [26, 27] (details provided in S.2 in S1 Appendix).

Algorithm to estimate the total antibody curve from January 1, 2021 to October 31, 2021

Recalling, H is the total number of age groups and T the total number of weeks. The algorithm is: For, h = 1, …, H Using the Roche N-test, compute in Eq (5). Obtain the (cumulative) state vaccination rate for week t by age group, denoted ν, from the Texas Dept of State Health Services database. Since they are cumulative, ν ≤ ν ≤ … ≤ ν for h = 1, …, H. For t = 1, …, T, compute the preliminary estimated N-test positive rate in the study at week t, in Eq (6). Next, compute the isotonic version of , , such that . Estimate the age-adjusted seroprevalence rate at week t, and then the total seroprevalence at week t, Plot t v.s. and t v.s. . These are Figs 1 and 2 discussed below.
Fig 1

Weekly SARS-CoV-2 natural antibody period seroprevalence and pointwise 95% confidence band for Texas CARES, estimated with isotonic transformed and with weighted seroprevalence age-standardized to the Texas 2021 census.

Blue vertical line indicates December 14, 2020, when vaccination started.

Fig 2

Estimated natural- and vaccine-induced antibodies in Texas (i.e., weekly percentage of naturally occurring antibodies or fully vaccinated individuals).

The horizontal axis labels denote the first day of the month. The estimate as of October 31, 2021 is 77.42%.

Weekly SARS-CoV-2 natural antibody period seroprevalence and pointwise 95% confidence band for Texas CARES, estimated with isotonic transformed and with weighted seroprevalence age-standardized to the Texas 2021 census.

Blue vertical line indicates December 14, 2020, when vaccination started.

Estimated natural- and vaccine-induced antibodies in Texas (i.e., weekly percentage of naturally occurring antibodies or fully vaccinated individuals).

The horizontal axis labels denote the first day of the month. The estimate as of October 31, 2021 is 77.42%.

Results

Descriptive information for the full sample, and adults 18 years and over, respectively, are shown in Tables 1 and 2. Table 1 also includes seropositivity by demographics for the period Oct 1, 2021- Oct 31, 2021. The mean (standard deviation) age of all participants was 50.5 years (16.1) and most participants were in the 50–64 year age group (31.2%). Most were female (67.2%), White (90.4%), and from urban locations (93.2%). Most adults reported having some college education or an advanced or professional degree, and were employed full time. Table 1 shows differences in seropositivity by age and race, but not by sex or ethnicity. More granular demographic, sociodemographic, and spatial data are available on the TX CARES Dashboard (https://sph.uth.edu/projects/texascares/dashboard, accessed 7/12/22).
Table 1

Texas CARES participants’ demographics overall, and seropositvity (period seroprevalence) from Oct 1, 2021 to Oct 31, 2021.

OverallSeropositivity
(N = 88605)Negative 2318 (73.0%)Positive 856 (27.0%)
Age (Years)
 Mean (SD)50.5 (16.1)
 Missing0
Age (Years, categorized)
 5–151376 (1.6%)68 (51.5%)64 (48.5%)
 16–17618 (0.7%)13 (52%)12 (48%)
 18–294805 (5.5%)106 (70.2%)45 (29.8%)
 30–3914148 (16.2%)417 (75%)139 (25%)
 40–4919032 (21.8%)486 (70.2%)206 (29.8%)
 50–6427210 (31.2%)713 (72.2%)275 (27.8%)
 65–7415760 (18.1%)432 (80.9%)102 (19.1%)
 75–793246 (3.7%)68 (89.5%)8 (10.5%)
 80–84771 (0.9%)10 (76.9%)3 (23.1%)
 85+186 (0.2%)5 (71.4%)2 (28.6%)
 Missing14530 (0%)0 (0%)
Gender
 Female59494 (67.2%)1619 (72.8%)604 (27.2%)
 Male29039 (32.8%)694 (73.5%)250 (26.5%)
 None of these describe me15 (0.0%)0 (0%)0 (0%)
 Missing575 (71.4%)2 (28.6%)
Race
 American Indian/Alaskan Native359 (0.4%)9 (90%)1 (10%)
 Asian4574 (5.3%)146 (81.6%)33 (18.4%)
 Black1899 (2.2%)37 (68.5%)17 (31.5%)
 Hawaiian/Other Pacific Islander122 (0.1%)4 (80%)1 (20%)
 Multi-racial1368 (1.6%)56 (78.9%)15 (21.1%)
 White78123 (90.4%)2011 (72.5%)764 (27.5%)
 Missing216055 (68.8%)25 (31.3%)
Ethnicity
 Hispanic12446 (14.6%)306 (70%)131 (30%)
 Non-Hispanic73068 (85.4%)1943 (73.8%)689 (26.2%)
 Missing309169 (65.7%)36 (34.3%)
BMI (categorical)
 Underweight1037 (1.2%)63 (78.8%)17 (21.3%)
 Healthy30928 (36.2%)852 (75.9%)270 (24.1%)
 Overweight28615 (33.5%)743 (72.1%)287 (27.9%)
 Obesity24873 (29.1%)575 (69.6%)251 (30.4%)
 Missing3152 (%)85 (73.3%)31 (26.7%)
Geographic Location
 Rural5755 (6.8%)63 (48.1%)68 (51.9%)
 Urban78983 (93.2%)1418 (74.5%)486 (25.5%)
 Missing3867 (%)837 (73.5%)302 (26.5%)
Table 2

Texas CARES participants’ sociodemographics and employment for participants aged 18 and older.

Adults ≥18 yearsOverall(N = 85158)
Education
 Some high school or less549(0.7%)
 High school graduate/GED5356(6.5%)
 Some college, no degree11729(14.2%)
 Two or four year college level degree35511(42.9%)
 Advanced professional or academic degree29711(35.9%)
 Missing2302
Employment Status
 Employed-full time46677(56.9%)
 Employed-part time8180(10.0%)
 Not currently employed/Unemployed14777(18.0%)
 Other12349(15.1%)
 Missing3175
Employment Industry
 Accommodation and Food Services850(1.6%)
 Administrative and Support and Waste Management409(0.8%)
 Agriculture, Forestry, Fishing & Hunting358(0.7%)
 Arts, Entertainment and Recreation1063(2.0%)
 Central Administrative Office Activity1429(2.7%)
 Construction1383(2.6%)
 Educational Services7781(14.4%)
 Finance and Insurance2848(5.3%)
 Health Care and Social Assistance21034(39.0%)
 Information1785(3.3%)
 Management of Companies and Enterprises1305(2.4%)
 Manufacturing1402(2.6%)
 Mining158(0.3%)
 Other61(0.1%)
 Professional, Scientific and Technical Services7104(13.2%)
 Real Estate and Rental and Leasing1345(2.5%)
 Retail Trade1733(3.2%)
 Transportation and Warehousing964(1.8%)
 Utilities555(1.0%)
 Wholesale Trade301(0.6%)
 Missing31290
We applied the method with H = 10 age groups, partially informed by vaccine rollout ages, 5–15, 16–17, 18–29, 30–39, 40–49, 50–64, 65–74, 75–79, 80–84 and 85+ years. Note that w is then the proportion of Texas population 5 years or older in the age group h. The census age-adjusted Texas COVID-19 seroprevalence using the Roche N-protein test over time (i.e., t v.s ) along with the 95% pointwise confidence band is shown in Fig 1. The vertical line on the graph delineates the time of first vaccine availability. Surges in seroprevalence correspond well to the known waves of SARS-CoV-2 in Texas [28]. We note that in all age groups; thus, the proportion of study participants who reported having had both COVID-19, and being fully vaccinated were roughly 1 − κ ≈ 15%. This indicates a violation of independence of natural infection and vaccination, which was expected. As these people must not be counted twice in a seroprevalence estimate, they are subtracted appropriately in each time period (week) per Eq (2). The estimated age-adjusted total period seroprevalence in Texas, defined as either having had natural SARS-CoV-2 infection or being fully vaccinated (solid line) over time (i.e., t v.s ) is shown in Fig 2. As of October 31, 2021, this is estimated to be 80% of the Texas population, with approximately 35.0% (95% CI = (33.1%, 36.9%) resulting from natural infection. To our knowledge, this is the most robust and accurate non-model based estimate to date in the state of Texas. We do not include a confidence interval for total antibodies since the proportion vaccinated is a known (fixed) population quantity rather than an estimate, and thus does not lend itself to an estimate of variability. While the seroprevalence is not known or fixed, the large sample of 88,605participants would result in a very small range for the 95% confidence interval, if one were to be produced.

Discussion

Using the methods proposed, the estimated proportion of the Texas population with antibodies against the SARS-CoV-2 virus, either from natural infection or induced by the vaccine, is nearly 80% as of October 31, 2021. This means 80% of the population benefits to some degree from reinfection from SARS-CoV-2 and acquiring COVID-19. There are several challenges to further practical or applied interpretation of these data. First, we do not fully understand the degree of protection from antibodies from natural infection compared to antibodies from the vaccines. The titer of antibodies from a full vaccine regimen is higher than a typical natural infection [29], but the diverse epitopes of a natural infection may offer advantages over antibodies targeting only spike protein. In addition, as SARS-CoV-2 mutates, new strains will likely influence the degree of protection of circulating antibodies [30]. Second, there is limited data on how long antibodies to the vaccine and to natural infection last, which makes it difficult to estimate total immunity [31-35]. Though early findings about the duration of natural and vaccine-generated antibodies are promising, it is reasonable to expect the proportion of people with detectable antibodies will decline over time. And finally, protection from an infectious agent is complex, and the concept of seroprevalence and protection does not take into account cell-mediated immunity and physical barriers, such as masks. In contrast to model-based approaches, the current research will allow researchers and health departments to calculate regional estimate degree of likely immunity in the least biased manner. However, limitations occur in observational serological surveys; e.g., sample demographics may not be fully representative of the state, which is true for some variables in the current survey. Sampling variability or selection biases may operate overall, and/or within small time windows of a serological survey, and can result in inaccurate estimates of natural immunity in the region. It will therefore generally be necessary to smooth estimates using a chosen time window dependent on factors such as the magnitude of the wave of infection and participant accrual rate. Fortunately, we observe that the application of an isotonic restriction to reflect the assumption that seroprevalence should not decrease in a reasonably small time window mostly overcomes the issue of daily or weekly sampling variability. Further, it is necessary to estimate the percentage of people who have both had natural COVID-19 infection and who are fully vaccinated in a given time window in order to subtract that proportion from the overall sum. It is also important to age-adjust estimated serological and vaccination rates to the state census so they are commensurate with population age structure. This is especially important since vaccination was rolled out by age group, with older adults first priority in January-March 2021 and approval for children and adolescents arriving much later in 2021. Finally, we could not adjust for all demographic factors, e.g., sex, race, ethnicity, to the distribution in the Texas population. This is due to the fact that, for example, for 10 age strata and 2 sex strata one would have 20 strata over 1-week periods of estimation, often resulting in no participants in a given strata. Adding race and ethnicity adjustment, although ideal, would have further decreased strata size leading to unreliable statistical inference. While this is a limitation of the current study, it is notable that the natural antibody status was not different between men and women (26.5% and 27.2% respectively). However, there were race differences in antibody status, thus not standardizing remains a limitation of this study. To our knowledge, this is the first fully data-driven estimation of infection- or vaccine- induced antibodies to SARS-CoV-2 in the state of Texas, which is the second largest state in the US with a population of 29.2 million. The estimated natural antibody rate of 35.0% contrasts with state-confirmed COVID-19 cases of 11.83%, demonstrating the importance of population-level studies. The method proposed and applied can be applied to any state or geographic area using vaccine counts, and an estimate of seroprevalence. As the pandemic unfolds and new variants are introduced, the estimates produced here will require further investigation. (PDF) Click here for additional data file. 23 Jun 2022
PONE-D-21-40593
Estimation of Natural- and Vaccine-Induced Antibodies to SARS-CoV-2 in a Large Geographic Region PLOS ONE Dear Dr. Leon Novelo, Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we feel that it has merit but does not fully meet PLOS ONE’s publication criteria as it currently stands. Therefore, we invite you to submit a revised version of the manuscript that addresses the points raised during the review process. Please see detailed comments from the reviewers below. The expert reviewers request a number of clarifications regarding population sample/ demographics and request improvements to the reporting of methodological aspects of the study. Can you please carefully revise the manuscript to address all comments raised? Please submit your revised manuscript by Aug 04 2022 11:59PM. If you will need more time than this to complete your revisions, please reply to this message or contact the journal office at plosone@plos.org. 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Have the authors made all data underlying the findings in their manuscript fully available? The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception (please refer to the Data Availability Statement in the manuscript PDF file). The data should be provided as part of the manuscript or its supporting information, or deposited to a public repository. For example, in addition to summary statistics, the data points behind means, medians and variance measures should be available. If there are restrictions on publicly sharing data—e.g. participant privacy or use of data from a third party—those must be specified. Reviewer #1: No Reviewer #2: No ********** 4. Is the manuscript presented in an intelligible fashion and written in standard English? PLOS ONE does not copyedit accepted manuscripts, so the language in submitted articles must be clear, correct, and unambiguous. Any typographical or grammatical errors should be corrected at revision, so please note any specific errors here. Reviewer #1: Yes Reviewer #2: Yes ********** 5. Review Comments to the Author Please use the space provided to explain your answers to the questions above. You may also include additional comments for the author, including concerns about dual publication, research ethics, or publication ethics. (Please upload your review as an attachment if it exceeds 20,000 characters) Reviewer #1: This study describes a statistical method to combine serial anti-nucleoprotein antibody testing and vaccination data to estimate the prevalence of SARS-CoV-2 antibodies in Texas due to natural infection, vaccination and both. The estimates given are for the overall state, but it would be more valuable to have these at finer resolution, e.g. by age groups, gender, ethnicity, county level, etc if the data is available. Methods: State whether the Texas CARES population is from all over Texas or just confined to certain cities/counties. Results As mentioned in the discussion, the population sampled for antibody testing does not appear to be representative for the state as a whole (especially e.g. in gender [67% female] and ethnicity [90% white]). Would it therefore be useful to also adjust for these demographics in the calculations (which are just census-adjusted for age groups)? Demographics other than age (e.g. ethnicity) may also be particularly important in vaccine uptake rates. Were demographic data available for the vaccinated population? Can Fig 1 & Fig 2 be combined as they contain the same data? This figure may also benefit from breaking down into demographic factors e.g. age and ethnicity to help identify target groups with high disease attack rates or high levels of susceptibility. The abstract compared the estimated natural antibody rate of 35.2% with confirmed COVID-19 cases of 11.83%, but this was not mentioned in the paper itself. As the study included a large sample of 87,466, perhaps comparisons between seropositive and reported case reports may be possible for demographic-specific layers e.g. county, age, ethnicity, etc. Reviewer #2: Dear Editor, I have now read the manuscript entitled: “Estimation of Natural and Vaccine-Induced Antibodies to SARS-CoV-2 in a Large Geographic Region” (manuscript no: PONE-D-21-40593) by Desantis SM, Leon Novelo LG et al. The manuscript content exemplify the result of using one SARS-CoV-2 serological assay (the Roche Elecsys called the Roche N-test) described to show neutralizing antibodies against the SARS-CoV-2 nucleocapsid (N) protein. Serum samples from a large population of 87 466 individuals (age span 0 – 85+years) from the state of Texas, USA were tested (study participants presented in Tables 1 and 2). The study results seem interesting, but a number of issues in the manuscript need to be clarified and better explained. Comments and questions: It is interesting that the used serological assay is aimed at showing neutralizing antibodies against SARS-CoV-2 virus, and still the viral antigen seem to be the nucleoprotein of the virus. The nucleoprotein is a internal protein of the SARS-CoV-2 virus, and not exposed sufficiently on the surface of the infectious virus particle, so it is difficult to understand how the detected antibodies can be virus-neutralizing? Q1. The authors should explain in which way the serological responses in the blood/serum samples of participating individuals can be virus-neutralizing if the assay target protein was an internal nucleocapsid virus protein? Q2a. The vaccinated individuals in the study were vaccinated with the S1-spike presenting vaccines. Vaccines used were either mRNA-vaccines or Johnson and Johnson vaccine. The authors should reveal which mRNA vaccines were used (Please provide manufacturer and proportion of study participants that were given which of the vaccines). Q3. If the vaccine recipients in the study population were given S1-spike vaccine, and the used serological Roche-N-test contain only the nucleoprotein of SARS-CoV-2? How can the anti-S1-spike antibodies be made to react with the nucleoprotein if the nucleoprotein is not in the vaccine? Please clarify. Q4. In Materials and Methods, paragraph 2.1 the study populations are presented as students, or professionals, or children 5-17 years. However, in Table 1 also children between age 0-4 is given. What was the reason for including these young children? Where their serum also tested in the serological assays? Q5a. Since the authors present their study populations in Tables 1 and 2 it would have been valuable to see how large proportions of the different groups that contained naturally infected respectively vaccinated individuals?. Q5b) Similarly, which proportion received only the Johnson and Johnson vaccine once, and which proportion/category of study participant that received the mRNA vaccine twice? Figures: Q6. In figure 1 (Weekly natural immunity) Texas CARES Roche N-test), in the table-text …. “Seroprevalence by Age group” is claimed to be shown. However, this information look quite unclear in the graph provided?? The authors should explain how readers should be able to identify the seroprevalence for all age-groups studied (this information would be very valuable to see and would significantly enhance the interest of the obtained data in this manuscript !!). ********** 6. PLOS authors have the option to publish the peer review history of their article (what does this mean?). If published, this will include your full peer review and any attached files. If you choose “no”, your identity will remain anonymous but your review may still be made public. Do you want your identity to be public for this peer review? For information about this choice, including consent withdrawal, please see our Privacy Policy. Reviewer #1: No Reviewer #2: No ********** [NOTE: If reviewer comments were submitted as an attachment file, they will be attached to this email and accessible via the submission site. Please log into your account, locate the manuscript record, and check for the action link "View Attachments". If this link does not appear, there are no attachment files.] While revising your submission, please upload your figure files to the Preflight Analysis and Conversion Engine (PACE) digital diagnostic tool, https://pacev2.apexcovantage.com/. PACE helps ensure that figures meet PLOS requirements. To use PACE, you must first register as a user. Registration is free. Then, login and navigate to the UPLOAD tab, where you will find detailed instructions on how to use the tool. If you encounter any issues or have any questions when using PACE, please email PLOS at figures@plos.org. Please note that Supporting Information files do not need this step. 3 Aug 2022 We attached a word file addressing the reviewers comments. Submitted filename: PLOSONEresponsetoreviewers.docx Click here for additional data file. 15 Aug 2022 Methodology to estimate natural- and vaccine-induced antibodies to SARS-CoV-2 in a large geographic region PONE-D-21-40593R1 Dear Dr. Luis Novelo, We’re pleased to inform you that your manuscript has been judged scientifically suitable for publication and will be formally accepted for publication once it meets all outstanding technical requirements. Within one week, you’ll receive an e-mail detailing the required amendments. When these have been addressed, you’ll receive a formal acceptance letter and your manuscript will be scheduled for publication. An invoice for payment will follow shortly after the formal acceptance. To ensure an efficient process, please log into Editorial Manager at http://www.editorialmanager.com/pone/, click the 'Update My Information' link at the top of the page, and double check that your user information is up-to-date. If you have any billing related questions, please contact our Author Billing department directly at authorbilling@plos.org. If your institution or institutions have a press office, please notify them about your upcoming paper to help maximize its impact. If they’ll be preparing press materials, please inform our press team as soon as possible -- no later than 48 hours after receiving the formal acceptance. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information, please contact onepress@plos.org. Kind regards, M. Kariuki Njenga Academic Editor PLOS ONE Additional Editor Comments (optional): Reviewers' comments: 25 Aug 2022 PONE-D-21-40593R1 Methodology to estimate natural- and vaccine-induced antibodies to SARS-CoV-2 in a large geographic region Dear Dr. Leon Novelo: I'm pleased to inform you that your manuscript has been deemed suitable for publication in PLOS ONE. Congratulations! Your manuscript is now with our production department. If your institution or institutions have a press office, please let them know about your upcoming paper now to help maximize its impact. If they'll be preparing press materials, please inform our press team within the next 48 hours. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information please contact onepress@plos.org. If we can help with anything else, please email us at plosone@plos.org. Thank you for submitting your work to PLOS ONE and supporting open access. Kind regards, PLOS ONE Editorial Office Staff on behalf of Dr. M. Kariuki Njenga Academic Editor PLOS ONE
  27 in total

1.  Antibody duration after infection from SARS-CoV-2 in the Texas Coronavirus Antibody Response Survey.

Authors:  Michael D Swartz; Stacia M DeSantis; Ashraf Yaseen; Frances A Brito; Melissa A Valerio-Shewmaker; Sarah E Messiah; Luis G Leon-Novelo; Harold W Kohl; Cesar L Pinzon-Gomez; Tianyao Hao; Shiming Zhang; Yashar Talebi; Joy Yoo; Jessica R Ross; Michael O Gonzalez; Leqing Wu; Steven H Kelder; Mark Silberman; Samantha Tuzo; Stephen J Pont; Jennifer A Shuford; David Lakey; Eric Boerwinkle
Journal:  J Infect Dis       Date:  2022-05-06       Impact factor: 5.226

2.  Comparison of Persistent Symptoms Following SARS-CoV-2 Infection by Antibody Status in Nonhospitalized Children and Adolescents.

Authors:  Sarah E Messiah; Tianyao Hao; Stacia M DeSantis; Michael D Swartz; Yashar Talebi; Harold W Kohl; Shiming Zhang; Melissa Valerio-Shewmaker; Ashraf Yaseen; Steven H Kelder; Jessica Ross; Michael O Gonzalez; Leqing Wu; Lindsay N Padilla; Kourtney R Lopez; David Lakey; Jennifer A Shuford; Stephen J Pont; Eric Boerwinkle
Journal:  Pediatr Infect Dis J       Date:  2022-08-01       Impact factor: 3.806

3.  Effect of 2 Inactivated SARS-CoV-2 Vaccines on Symptomatic COVID-19 Infection in Adults: A Randomized Clinical Trial.

Authors:  Nawal Al Kaabi; Yuntao Zhang; Shengli Xia; Yunkai Yang; Manaf M Al Qahtani; Najiba Abdulrazzaq; Majed Al Nusair; Mohamed Hassany; Jaleela S Jawad; Jehad Abdalla; Salah Eldin Hussein; Shamma K Al Mazrouei; Maysoon Al Karam; Xinguo Li; Xuqin Yang; Wei Wang; Bonan Lai; Wei Chen; Shihe Huang; Qian Wang; Tian Yang; Yang Liu; Rui Ma; Zaidoon M Hussain; Tehmina Khan; Mohammed Saifuddin Fasihuddin; Wangyang You; Zhiqiang Xie; Yuxiu Zhao; Zhiwei Jiang; Guoqing Zhao; Yanbo Zhang; Sally Mahmoud; Islam ElTantawy; Peng Xiao; Ashish Koshy; Walid Abbas Zaher; Hui Wang; Kai Duan; An Pan; Xiaoming Yang
Journal:  JAMA       Date:  2021-07-06       Impact factor: 56.272

Review 4.  Prospects for durable immune control of SARS-CoV-2 and prevention of reinfection.

Authors:  Deborah Cromer; Jennifer A Juno; Stephen J Kent; Miles P Davenport; David Khoury; Arnold Reynaldi; Adam K Wheatley
Journal:  Nat Rev Immunol       Date:  2021-04-29       Impact factor: 53.106

5.  Naturally acquired SARS-CoV-2 immunity persists for up to 11 months following infection.

Authors:  Valeria De Giorgi; Kamille A West; Amanda N Henning; Leonard N Chen; Michael R Holbrook; Robin Gross; Janie Liang; Elena Postnikova; Joni Trenbeath; Sarah Pogue; Tania Scinto; Harvey J Alter; Cathy Conry Cantilena
Journal:  J Infect Dis       Date:  2021-06-05       Impact factor: 5.226

6.  Mathematical Modeling and Covid-19 Forecast in Texas, USA: a prediction model analysis and the probability of disease outbreak.

Authors:  Md Nazmul Hassan; Md Shahriar Mahmud; Kaniz Fatema Nipa; Md Kamrujjaman
Journal:  Disaster Med Public Health Prep       Date:  2021-05-19       Impact factor: 1.385

7.  Naturally enhanced neutralizing breadth against SARS-CoV-2 one year after infection.

Authors:  Zijun Wang; Frauke Muecksch; Dennis Schaefer-Babajew; Shlomo Finkin; Charlotte Viant; Christian Gaebler; Hans- Heinrich Hoffmann; Christopher O Barnes; Melissa Cipolla; Victor Ramos; Thiago Y Oliveira; Alice Cho; Fabian Schmidt; Justin Da Silva; Eva Bednarski; Lauren Aguado; Jim Yee; Mridushi Daga; Martina Turroja; Katrina G Millard; Mila Jankovic; Anna Gazumyan; Zhen Zhao; Charles M Rice; Paul D Bieniasz; Marina Caskey; Theodora Hatziioannou; Michel C Nussenzweig
Journal:  Nature       Date:  2021-06-14       Impact factor: 49.962

8.  Modeling the viral dynamics of SARS-CoV-2 infection.

Authors:  Sunpeng Wang; Yang Pan; Quanyi Wang; Hongyu Miao; Ashley N Brown; Libin Rong
Journal:  Math Biosci       Date:  2020-08-06       Impact factor: 2.144

9.  Functional SARS-CoV-2-Specific Immune Memory Persists after Mild COVID-19.

Authors:  Lauren B Rodda; Jason Netland; Laila Shehata; Kurt B Pruner; Peter A Morawski; Christopher D Thouvenel; Kennidy K Takehara; Julie Eggenberger; Emily A Hemann; Hayley R Waterman; Mitchell L Fahning; Yu Chen; Malika Hale; Jennifer Rathe; Caleb Stokes; Samuel Wrenn; Brooke Fiala; Lauren Carter; Jessica A Hamerman; Neil P King; Michael Gale; Daniel J Campbell; David J Rawlings; Marion Pepper
Journal:  Cell       Date:  2020-11-23       Impact factor: 66.850

10.  Antibodies Responses to SARS-CoV-2 in a Large Cohort of Vaccinated Subjects and Seropositive Patients.

Authors:  Emanuele Amodio; Giuseppina Capra; Alessandra Casuccio; Simona De Grazia; Dario Genovese; Stefano Pizzo; Giuseppe Calamusa; Donatella Ferraro; Giovanni Maurizio Giammanco; Francesco Vitale; Floriana Bonura
Journal:  Vaccines (Basel)       Date:  2021-07-01
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