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Respiratory health, allergies, and the farm environment: design, methods and enrollment in the observational Wisconsin Infant Study Cohort (WISC): a research proposal


Epidemiologic and cross-sectional studies suggest that early life farming and animal exposures are associated with major health benefits, influencing immune development and modifying the subsequent risk of allergic diseases, including asthma. The Wisconsin Infant Study Cohort (WISC) study was established in central Wisconsin to test the hypothesis that early life animal farm exposures are associated with distinct innate immune cell maturation trajectories, decreased allergen sensitization and reduced respiratory viral illness burden during the first 2 years of life. Beginning in 2013, a total of 240 families have been enrolled, 16,522 biospecimens have been collected, and 4098 questionnaires have been administered and entered into a secure database. Study endpoints include nasal respiratory virus identification and respiratory illness burden score, allergic sensitization, expression of allergic disease, and anti-viral immune response maturation and profiles. The WISC study prospective design, broad biospecimen collections, and unique US rural community will provide insights into the role of environmental exposures on early life immune maturation profiles associated with protection from allergic sensitization and significant respiratory viral disease burden. The WISC study findings will ultimately inform development of new strategies to promote resistance to severe respiratory viral illnesses and design primary prevention approaches for allergic diseases for all infants.


Young children under 5 years of age have a high incidence of hospitalization and morbidity caused by infections with common respiratory viruses. Respiratory infections are particularly high for infants who show early evidence of atopic diseases (e.g. atopic dermatitis) [1,2,3]. Epidemiologic and cross-sectional studies suggest that early life farming and animal exposures are associated with major health benefits, influencing immune development and modifying the subsequent risk of allergic diseases, including asthma [4]. Farming effects associated with decreased allergic disease include exposure to unprocessed milk (referred to as farm milk), farm animal waste and housing, and potentially bioactive substances in the farm environment [5,6,7,8,9,10,11]. In accordance with previously published studies in Western Europe, our study from central Wisconsin using interview and electronic health records (EHR) demonstrated that children raised in farming environments have a significant decrease in allergic diseases during the first 2 years of life [11,12,13,14,15]. In addition, children who live on farms in Western Europe or Wisconsin also have a marked reduction in medically-attended respiratory illnesses during the first 2 years of life compared to rural children who do not live on a farm [12, 16]. These collective findings suggest that farm-related exposures promote healthy immune system development in early life and that may lead to reduced burden of respiratory illnesses and allergic diseases. Identification and (prospective) characterization of a cohort of children that are highly protected from developing allergy disease would provide further insights and rationale in naturally-occurring environmental exposures that influence the foundational steps to prevent immune-mediated conditions.

This report details the study design, recruitment strategies, biospecimens, and unique characteristics of the Wisconsin Infant Study Cohort (WISC). Expanding upon published epidemiologic findings from our group and others, the WISC study is designed to test the hypothesis that early life animal farm exposures are associated with reduced respiratory viral illness burden, distinct innate immune cell maturation trajectories, and decreased allergen sensitization during the first 2 years of life. Findings from the WISC study will better define the environmental impact of farming-related exposures on respiratory viral illnesses, immune maturation, and allergic sensitization.


Design and setting

The WISC study is a prospective birth cohort of infants who are, and who are not, regularly exposed to farm environments prenatally and during the first 2 years of life. The target population included pregnant mothers from central, northern, and western Wisconsin who received prenatal and/or perinatal care from healthcare providers in the Marshfield Clinic Health System (MCHS). MCHS is a large, integrated care system serving a predominantly rural part of Wisconsin. There are approximately 3500 births per year within MCHS, which serves a region with one of the highest density of farm households (primarily dairy production) in the U.S [17]. WISC is led by the University of Wisconsin (UW) and conducted in collaboration with the Marshfield Clinic Research Institute (MCRI), which is approximately 150 miles north of the UW-Madison campus.


Beginning in 2013, pregnant mothers from the target population were screened, invited, and enrolled in WISC. The target enrollment was 100 farm and 100 non-farm infants. Expecting mothers were enrolled prior to birth, and this included informed consent to capture study measures (described further below) on their child both before and after birth. Participants were enrolled as a dyad, as consent was signed before birth by the mother and on behalf of the child after birth. Farm mothers were defined as those who live on, or within 1/8th mile of a farm, or who work on, or have a household member who works on a farm. Farm mothers also have regular exposure to (i.e., direct personal [or household member] contact ≥ 4 days per week) with cattle (cows, calves, bulls, steers), pigs or goats. Non-farm mothers do not live on (or within 1/8th mile of) a farm, nor work on, or have a household member who works on, a farm. Non-farm mothers also do not visit a farm weekly or more, nor have any farm livestock animals as pets (e.g., cows, goats, pigs, horses, chickens). All study activities and procedures were approved by the MCHS and UW Human Subjects Institutional Review Boards.

Recruitment and screening

Potentially eligible pregnant women were initially identified using the MCHS EHR. Non-farm eligible pregnant women are more frequent than farm eligible pregnant women, thus recruitment outreach activities were conducted at proportionate intensities to help ensure approximately equal numbers of farm and non-farm enrollments during each season. The initial enrollment area was confined to births at the Marshfield Medical Center in Marshfield, WI. In 2015, 24 additional ZIP codes in the Marshfield Epidemiologic Study Area (MESA), which encompasses 10 rural medical centers throughout north-central Wisconsin, were added to increase enrollment [18, 19]. Potentially eligible patients were first mailed an informational postcard on the study, followed by an informational letter and brochure, plus an interest response card. Once eligibility information could be verified in the EHR, an invitation letter was sent (signed by their obstetrics healthcare provider), plus up to six phone call attempts. When reached for the initial phone contact, farm or non-farm categorization and exclusion factors were again verified. If all eligibility criteria were met, a face-to-face invitation and enrollment visit was arranged, typically during scheduled prenatal visits. After informed consent forms were signed during the enrollment visit, a questionnaire to gather information about health history, environmental exposures, and lifestyle was completed.

After the birth of the participant mother’s child, a comprehensive birth record abstraction was conducted to rule out potential confounders due to complications from the pregnancy. Detailed study eligibility criteria are listed in Additional file 1: Table S1. Exclusion criteria are: (1) maternal use of antibiotics (except Group B Strep prophylaxis) or corticosteroids in the last trimester of pregnancy; (2) delivery at ≤ 34 weeks gestation; (3) perinatal infections or prolonged rupture of membranes; (4) significant congenital anomalies; (5) significant respiratory distress after delivery.

Study visits

As outlined in Table 1, in-person visits occur prenatally and when the infant is at 2, 9, 12, 18, and 24 months of age (with a permitted window of − 1 to + 3 months for each study time point). All visits are led by a trained Research Coordinator and occur at participants’ homes or coincide with a scheduled well child healthcare visit at their clinic. In addition, after the infant is born, mothers are contacted by telephone every 3 months to complete a study questionnaire. Prompts are sent by telephone or mail at monthly intervals to schedule study activities or remind about upcoming study procedures.

Table 1 WISC study activity schedule

Endpoints and outcomes

The primary outcome is respiratory viral illness burden from 2 months to 2 years of age (Fig. 1). Endpoints analyzed for this outcome include nasal swab respiratory virus detection and respiratory illness burden index. A respiratory illness is defined as at least 2 consecutive days of cold, cough, or wheeze. Nasal swabs collected at routine surveillance timepoints and during illness episodes are assayed for all common respiratory viruses (e.g. rhinovirus, respiratory syncytial virus, coronavirus, influenza, parainfluenza, metapneumovirus, bocavirus, enterovirus and adenovirus) by multiplex reverse transcription polymerase chain reaction (RT-PCR) at the UW study site [20]. Rhinovirus isolates are partially sequenced to identify strains and to differentiate lengthy single infections from serial infections with different rhinovirus strains. During illnesses, parents are asked to record daily information consisting of scored illness signs/symptoms and temperature measurements (if fever present) in calendar-formatted paper diaries. Illness signs/symptoms are recorded on a 4-point scale (none, mild, moderate, severe) similar to previously published studies [21,22,23]. Parents or legal guardians record the data every day until symptoms resolve. The respiratory illness burden index is calculated as area under the curve (AUC) for symptom scores and days of illness. Linked EHR data is also used to capture medically-attended respiratory illnesses via diagnostic codes and/or respiratory antiviral medication prescriptions.

Fig. 1
figure 1

Schematic of biospecimen and data collection for WISC study primary outcome. Middle turbinate nasal swabs are collected using FLOQSwabs™

Secondary outcomes include allergic sensitization, expression of allergic disease, and antiviral innate immune cell maturation. For the allergic sensitization outcome, plasma IgE-specific antibodies are analyzed at several time points using a two-tiered approach with multiscreen panels (foods and environmental airborne allergens [Phadiatop, Waltham MA]) and, where indicated, individual IgE-specific quantitative measurements. Atopic dermatitis (incidence, cumulative prevalence, and resolution) is defined as parental report of chronic pruritic skin rash or doctor-diagnosed atopic dermatitis on the EHR.

To determine antiviral immune responses, we have adapted and optimized a previously published high-throughput assay stimulation platform and multi-parameter flow cytometry panel [24]. Standardized assay plates with TLR agonists (R848 [TLR7/8]; LPS [TLR4]; CpGA [TLR9]) and infectious rhinovirus-A16 were preformatted for blood sample processing and stimulation at the MCRI study site. Collected blood samples are processed and stimulated within 24 h of collection. Pilot validation studies showed comparable assay read-outs within this processing time criteria (Additional file 1: Figure S1). Sample staining, acquisition, and analysis are performed at the UW study site. Precision testing demonstrated excellent inter-assay and intra-assay performance with an average assay coefficient of variation 14.3% (range for various agonists: 6.5–27.3%, Additional file 1: Figures S2, S3, respectively). As an exploratory endpoint, T regulatory (Treg) cells were identified using immune phenotyping and epigenetic analysis using previously published approaches [25].

Sample size

The primary outcome measures for WISC are (1) rate of respiratory viral infections at scheduled quarterly visits and (2) respiratory illness burden index for the first 2 years of life. For the first outcome, the proposed sample size of 100 participants per group with 10% dropout will provide 80% power to detect a reduction in infection rate to 30% in the farm participants compared with 40% in the non-farm participants (odds ratio of 0.64) using a two-sided 5% level test, conservatively assuming that a correlation of 0.5 between occurrence of respiratory infections at two visits within the same child. Using data from the Childhood Origins of AsThma (COAST) birth cohort (yielding an estimated standard deviation for the respiratory illness burden index over the first 2 years of life of 32.6) and published epidemiologic farm studies, the proposed sample size of 100 farm and 100 non-farm participants with an expected retention rate of 0.9 will provide at least 80% power to detect a 19% reduction in respiratory illness burden index in farm participants (corresponding to a mean respiratory illness burden index of 65.4 in farm infants compared to 78 in non-farm infants) using a two-sided 5% level test [12, 26, 27].


Several previously validated questionnaires were used in the WISC study (Table 2). Questionnaires are administered face-to-face by Research Coordinators or over the phone, depending on visit schedule and participant preferences. A Research Electronic Data CAPture (REDCap™) database was developed for questionnaire data entry and transcription of other EHR-extracted study variables [28]. Research Coordinators record participants’ responses on hard copy forms of the questionnaires and re-enter survey data in REDCap™ upon their return to the office. If the questionnaire is administered over the phone, the data is direct-entered. Regular quality assurance, including (blinded) double data entry on randomly selected questionnaires, is conducted to ensure data integrity. Other information such as medication use and acute care episodes are extracted from the EHR. The birth record containing information on the newborn child and mother is also extracted to record relevant study details related to eligibility. Other information includes infant’s, mother’s, and father’s demographic characteristics, noted birth complications, vaccine administration in the prenatal period, mother’s chronic disease status, anesthesia use, method of delivery, and medication use of mothers during pregnancy and while breastfeeding.

Table 2 WISC study questionnaires

Biospecimen processing and tracking

A number of environmental and personal biospecimens are collected. A study ID number is randomly assigned to each participant and linked to laboratory and study metadata. WISC study data management, including data validation, storage and quality assurance, is conducted by MCRI staff. Data files are transferred between study sites via an honest broker and secure, password-protected File Transfer Protocol. Biospecimens are collected for defined study outcomes and additional biospecimens are being collected for future analyses and endpoints (Table 3). For uniformity in data collection, detailed standard operating procedures and data collection instruments were developed for WISC (available upon request). To control for biospecimen collection variances, lot tracking of all collection materials is documented and blank collection tubes from each lot are saved for all microbiome-related biospecimens. Biospecimens were collected during scheduled clinic visits, in the home by trained Research Coordinators, or by the participating child’s parent or legal guardian in the home. Viral nasal swab biospecimens are collected during scheduled time points and during respiratory illnesses at home or in the clinic by parent/legal guardians and trained Research Coordinators. After collection, swabs are placed in transport medium and mailed to MCRI. Specimens are then frozen and stored, pending further processing and analysis at the UW study site. Viral diagnostics are conducted as previously described [29].

Table 3 Biospecimen type and testing plan


Categorical data were compared between farm and non-farm using the Chi squared test for association.

Percentages were rounded to the nearest whole number.



As outlined in Fig. 2, both the farm and non-farm cohorts of the WISC study have been fully enrolled. During the ~ 5-year timeframe from April 2013 through May 2018, the total number of pregnancies electronically screened was 19,450. The majority of these women (67%) resided outside the study’s geographic catchment area. Another 18% of those screened were too far along in their pregnancy to begin recruitment, 1% had exclusionary medical conditions, and 8% could not be reached for study contact. The remaining 6% made up the study recruitment pool, consisting of 932 potential non-farm and 429 potential farm women. After initial contact, 612 non-farm and 309 farm women were found to be eligible for WISC. Reasons for ineligibility at this stage mostly included additional medical issues, and ambiguity in establishing farm vs. non-farm status. Of the eligible non-farm women, 145 (24%) consented to WISC, and of eligible farm women, 128 (41%) consented. The enrollment rate was significantly higher for farm vs. non-farm mothers (\(X^{2}_{{\left( {{\text{DF}} = 1} \right)}}\) = 30.95, p < 0.001). After birth, 8% of non-farm and 9% of farm children were found to be ineligible due to medical complications from the pregnancy. To date, 115 non-farm families and 94 farm families are enrolled in the study. Of these, 12% have withdrawn, and 4% are still awaiting delivery. The median follow-up time for enrolled children is 27 months. Additional families will be enrolled to replace those withdrawn from the study.

Fig. 2
figure 2

WISC study recruitment and enrollment

Sociodemographic characteristics of the farm and non-farm groups were similar, except that there were significantly more male children born in the farm group (p = 0.03, Table 4). Most enrollees lived in counties near the main study site in Marshfield. The vast majority of enrolled mothers gave birth between the age of 25–34 years, and nearly two-thirds had a college education. Home environment and personal health characteristics are described in Table 5. Compared to non-farm mothers, a significantly greater proportion of farm mothers owned a dog (p < 0.001) or cat (p < 0.001), and regularly drank farm milk (i.e., unprocessed milk obtained directly from a farm) during their pregnancy (p < 0.001), A significantly greater proportion of farm children (at age 2 months) spent at least 1 day per week at another home (p = 0.02), and non-farm mothers were more likely to work outside the home (p = 0.005). Study covariates that were not significantly different between the groups include mode of delivery, maternal history of varied allergic diseases, maternal smoking, and exclusive breastfeeding during the first 2 months of life.

Table 4 Baseline sociodemographic characteristics of mothers and children enrolled in the wisc study, stratified by farm status
Table 5 Home environment and personal health characteristics of WISC study participants

Farm characteristics and related activities of farm group participants are listed in Table 6. The WISC study farm group eligibility criteria was designed to enroll pregnant woman exposed to livestock farming with an emphasis on dairy cows, along with regular contact between the pregnant mother and livestock. A subset of the farm pregnant woman (16%) worked on the farm but did not live there. For the pregnant women that live on a farm, 31% also report working on the farm. The WISC farm group mostly live on dairy farms (77%), and 50% are small dairy farms (≤ 100 cows per farm, Table 6 and Additional file 1: Figure S4). Half of the farms have more than one type of farm animal and the vast majority of WISC farms also grow crops. During pregnancy, most of the farm women had regular direct contact with cattle, hay, straw, feed grain, and silage. The majority of both 2 and 9 month old farm group infants spent time in the animal barns on a daily or weekly basis.

Table 6 Farm characteristics of WISC mothers/infants in the farm group

Biospecimen collection

To date, 1999 nasal swabs have been collected. This includes 1105 nasal illness swabs from both farm and non-farm participants. The WISC study has collected 197 cord blood samples and 267 1- or 2-year blood samples for immune studies. In addition to the immune and viral studies, the WISC study has collected a large number of biospecimens to define group-specific patterns of microbial exposures and colonization, and for future analysis of gene expression, proteins and metabolites. As of May 2018, a cumulative total of 16,522 biospecimens have been collected for the WISC study (Fig. 3).

Fig. 3
figure 3

Number and type of biospecimens collected to date for the WISC study


The WISC study is the first rural and farming birth cohort in the US. There are several birth cohorts in the United States established to understand the origins of allergic diseases and role of viral respiratory infections, but none focus on farm exposures early in life [30,31,32]. Identification and in-depth characterization of population subgroups with strong protection from allergic disease are necessary to better define the immune mechanisms of allergic disease inception and inform rationale prevention strategies.

The WISC study has reached its enrollment goal. Baseline characteristics appeared reasonably balanced between farm and non-farm groups, though the participation rate is higher in farm families. Reasons for this are not understood, but could involve an opportunity to participate in a study that may reflect favorably on farming lifestyles. In general, WISC participants had a higher education level and included about twice as many college graduates as is typically seen in Wisconsin adults [33].

The WISC study comprehensive biospecimen collections and excellent participant retention to date will allow us to not only adequately test the WISC study hypothesis, but will also provide opportunities for additional studies. For example, specimens are being collected to enable future studies of associations between serum and airway microbes and metabolites and study outcomes. Notably, the Wisconsin diary industry was founded by Bavarians, and about 85% of the Wisconsin farmers have Bavarian surnames. Comparisons of findings in WISC and Western European cohorts such as the Protection against Allergy—Study in Rural Environments (PASTURE) study should be of great interest [34]. For example, WISC farm mothers reported a considerably lower rate of farm milk ingestion relative to European farm mothers [35].

Methodological strengths of the WISC study include recruitment from a well-defined source population, directly observed exposure classifications, and laboratory-confirmed assessment of key illness and allergy outcomes. The WISC study includes families with broad range of farm exposures and practices, and this presents opportunities to compare quantitative and qualitative measures of farm exposures to study outcomes.

In addition to the ongoing data collection and analysis to address study outcomes during the first 2 years of life, the WISC study has now been extended to follow the participants up to 8 years of age. The WISC study is also part of the recently established Children’s Respiratory and Environmental Workgroup (CREW) Consortium, funded by the Environmental Influences on Child Health Outcomes (ECHO) program. ECHO-CREW aims to harmonize data from 12 US birth cohorts focused on asthma inception, risk factors, and causal pathways. Inclusion of the WISC study cohort, the only rural and farming cohort, alongside urban, suburban, and varied geographic and race/ethnicity will provide a broader representation of US demographics.


The WISC study is a rural and farming birth cohort unique to the US. Our study design and successful enrollment provide a solid foundation to begin addressing our study outcomes. The findings from the WISC study will provide the first prospective, serial analysis of viral respiratory disease burden, immune development, and allergen sensitization with varied environmental exposures. This knowledge will enable development of safe and novel strategies to prevent respiratory diseases in the general population, monitor response to immunotherapies, and predict individual risk for allergic disease.


Common to most longitudinal studies, attrition over time is a potential concern as enrollees age and/or move out of the study area. Also, as is typical in the rural Midwest, the sample lacks racial diversity and, while adequately sized for main outcome analyses, may be small to test for effect modification in select subgroups [36]. A potential limitation of our study is the lack of air quality monitoring, particularly since ambient air pollution exposure in early life has been associated with the inception of allergic diseases and respiratory health [37,38,39,40,41]. This limitation could be overcome though accessing open source regulatory monitoring data.

Availability of data and materials

The WISC study detailed manual of procedures and specific standard operating procedure source documents are available from the corresponding author on reasonable request.



area under the curve


Children’s Respiratory and Environmental Workgroup


Childhood Origins of AsThma


Environmental Influences on Child Health Outcomes


electronic health records


Marshfield Clinic Health System


Marshfield Clinic Research Institute


Marshfield Epidemiologic Study Area


Protection against Allergy—Study in Rural Environments


Research Electronic Data CAPture


reverse transcription polymerase chain reaction


T regulatory


University of Wisconsin


Wisconsin Infant Study Cohort


  1. Balekian DS, Linnemann RW, Castro VM, Perlis R, Thadhani R, Camargo CA Jr. Pre-birth cohort study of atopic dermatitis and severe bronchiolitis during infancy. Pediatr Allergy Immunol. 2016;27(4):413–8.

    Article  Google Scholar 

  2. Possin ME, Morgan S, DaSilva DF, Tisler C, Pappas TE, Roberg KA, Anderson E, Evans MD, Gangnon R, Lemanske RF, et al. The relationships among immunoglobulin levels, allergic sensitization, and viral respiratory illnesses in early childhood. Pediatr Allergy Immunol. 2010;21(6):990–6.

    Article  Google Scholar 

  3. Singh AM, Evans MD, Gangnon R, Roberg KA, Tisler C, DaSilva D, Pappas T, Salazar L, Anderson EL, Gern JE, et al. Expression patterns of atopic eczema and respiratory illnesses in a high-risk birth cohort. J Allergy Clin Immunol. 2010;125(2):491–493.e4.

    Article  Google Scholar 

  4. von Mutius E, Vercelli D. Farm living: effects on childhood asthma and allergy. Nat Rev Immunol. 2010;10(12):861–8.

    Article  Google Scholar 

  5. Ege MJ, Mayer M, Normand AC, Genuneit J, Cookson WO, Braun-Fahrlander C, Heederik D, Piarroux R, von Mutius E. Exposure to environmental microorganisms and childhood asthma. N Engl J Med. 2011;364(8):701–9.

    Article  CAS  Google Scholar 

  6. Kirchner B, Pfaffl MW, Dumpler J, von Mutius E, Ege MJ. microRNA in native and processed cow’s milk and its implication for the farm milk effect on asthma. J Allergy Clin Immunol. 2016;137(6):1893–1895.e13.

    Article  CAS  Google Scholar 

  7. Loss G, Apprich S, Waser M, Kneifel W, Genuneit J, Buchele G, Weber J, Sozanska B, Danielewicz H, Horak E, et al. The protective effect of farm milk consumption on childhood asthma and atopy: the GABRIELA study. J Allergy Clin Immunol. 2011;128(4):766–773.e4.

    Article  Google Scholar 

  8. Brick T, Schober Y, Bocking C, Pekkanen J, Genuneit J, Loss G, Dalphin JC, Riedler J, Lauener R, Nockher WA, et al. Omega-3 fatty acids contribute to the asthma-protective effect of unprocessed cow’s milk. J Allergy Clin Immunol. 2016;137(6):1699–1706.e13.

    Article  CAS  Google Scholar 

  9. Loss G, Depner M, Ulfman LH, van Neerven RJ, Hose AJ, Genuneit J, Karvonen AM, Hyvarinen A, Kaulek V, Roduit C, et al. Consumption of unprocessed cow’s milk protects infants from common respiratory infections. J Allergy Clin Immunol. 2015;135(1):56–62.

    Article  Google Scholar 

  10. Valkonen M, Wouters IM, Taubel M, Rintala H, Lenters V, Vasara R, Genuneit J, Braun-Fahrlander C, Piarroux R, von Mutius E, et al. Bacterial exposures and associations with atopy and asthma in children. PLoS ONE. 2015;10(6):e0131594.

    Article  Google Scholar 

  11. Depner M, Ege MJ, Genuneit J, Pekkanen J, Roponen M, Hirvonen MR, Dalphin JC, Kaulek V, Krauss-Etschmann S, Riedler J, et al. Atopic sensitization in the first year of life. J Allergy Clin Immunol. 2013;131(3):781–8.

    Article  Google Scholar 

  12. Ludka-Gaulke T, Ghera P, Waring SC, Keifer M, Seroogy C, Gern JE, Kirkhorn S. Farm exposure in early childhood is associated with a lower risk of severe respiratory illnesses. J Allergy Clin Immunol. 2018;141(1):454–456.e4.

    Article  Google Scholar 

  13. Riedler J, Braun-Fahrlander C, Eder W, Schreuer M, Waser M, Maisch S, Carr D, Schierl R, Nowak D, von Mutius E. Exposure to farming in early life and development of asthma and allergy: a cross-sectional survey. Lancet. 2001;358(9288):1129–33.

    Article  CAS  Google Scholar 

  14. Von Ehrenstein OS, Von Mutius E, Illi S, Baumann L, Bohm O, von Kries R. Reduced risk of hay fever and asthma among children of farmers. Clin Exp Allergy. 2000;30(2):187–93.

    Article  Google Scholar 

  15. Douwes J, Cheng S, Travier N, Cohet C, Niesink A, McKenzie J, Cunningham C, Le Gros G, von Mutius E, Pearce N. Farm exposure in utero may protect against asthma, hay fever and eczema. Eur Respir J. 2008;32(3):603–11.

    Article  CAS  Google Scholar 

  16. Loss G, Depner M, Ulfman LH, van Neerven RJ, Hose AJ, Genuneit J, Karvonen AM, Hyvarinen A, Kaulek V, Roduit C, et al. Consumption of unprocessed cow’s milk protects infants from common respiratory infections. J Allergy Clin Immunol. 2015;135(1):56–62.

    Article  Google Scholar 

  17. Stephenson M. We’re creating cow islands. In: Hoard’s Dairyman. 2013. p. 191.

  18. DeStefano F, Eaker ED, Broste SK, Nordstrom DL, Peissig PL, Vierkant RA, Konitzer KA, Gruber RL, Layde PM. Epidemiologic research in an integrated regional medical care system: the Marshfield Epidemiologic Study Area. J Clin Epidemiol. 1996;49(6):643–52.

    Article  CAS  Google Scholar 

  19. Kieke AL, Kieke BA Jr, Kopitzke SL, McClure DL, Belongia EA, VanWormer JJ, Greenlee RT. Validation of health event capture in the Marshfield epidemiologic study area. Clin Med Res. 2015;13(3–4):103–11.

    Article  Google Scholar 

  20. Lee WM, Grindle K, Pappas T, Marshall DJ, Moser MJ, Beaty EL, Shult PA, Prudent JR, Gern JE. High-throughput, sensitive, and accurate multiplex PCR-microsphere flow cytometry system for large-scale comprehensive detection of respiratory viruses. J Clin Microbiol. 2007;45(8):2626–34.

    Article  CAS  Google Scholar 

  21. Olenec JP, Kim WK, Lee WM, Vang F, Pappas TE, Salazar LE, Evans MD, Bork J, Roberg K, Lemanske RF Jr, et al. Weekly monitoring of children with asthma for infections and illness during common cold seasons. J Allergy Clin Immunol. 2010;125(5):1001–1006.e1.

    Article  Google Scholar 

  22. Johnston NW, Mandhane PJ, Dai J, Duncan JM, Greene JM, Lambert K, Sears MR. Attenuation of the September epidemic of asthma exacerbations in children: a randomized, controlled trial of montelukast added to usual therapy. Pediatrics. 2007;120(3):e702–12.

    Article  Google Scholar 

  23. Kloepfer KM, Olenec JP, Lee WM, Liu G, Vrtis RF, Roberg KA, Evans MD, Gangnon RE, Lemanske RF Jr, Gern JE. Increased H1N1 infection rate in children with asthma. Am J Respir Crit Care Med. 2012;185:1275–9.

    Article  Google Scholar 

  24. Jansen K, Blimkie D, Furlong J, Hajjar A, Rein-Weston A, Crabtree J, Reikie B, Wilson C, Kollmann T. Polychromatic flow cytometric high-throughput assay to analyze the innate immune response to Toll-like receptor stimulation. J Immunol Methods. 2008;336(2):183–92.

    Article  CAS  Google Scholar 

  25. Nettenstrom L, Alderson K, Raschke EE, Evans MD, Sondel PM, Olek S, Seroogy CM. An optimized multi-parameter flow cytometry protocol for human T regulatory cell analysis on fresh and viably frozen cells, correlation with epigenetic analysis, and comparison of cord and adult blood. J Immunol Methods. 2013;387(1–2):81–8.

    Article  CAS  Google Scholar 

  26. Loisel DA, Du G, Ahluwalia TS, Tisler CJ, Evans MD, Myers RA, Gangnon RE, Kreiner-Moller E, Bonnelykke K, Bisgaard H, et al. Genetic associations with viral respiratory illnesses and asthma control in children. Clin Exp Allergy. 2016;46(1):112–24.

    Article  CAS  Google Scholar 

  27. Rubner FJ, Jackson DJ, Evans MD, Gangnon RE, Tisler CJ, Pappas TE, Gern JE, Lemanske RF Jr. Early life rhinovirus wheezing, allergic sensitization, and asthma risk at adolescence. J Allergy Clin Immunol. 2017;139(2):501–7.

    Article  Google Scholar 

  28. Harris PA, Taylor R, Thielke R, Payne J, Gonzalez N, Conde JG. Research electronic data capture (REDCap)–a metadata-driven methodology and workflow process for providing translational research informatics support. J Biomed Inform. 2009;42(2):377–81.

    Article  Google Scholar 

  29. Bashir H, Grindle K, Vrtis R, Vang F, Kang T, Salazar L, Anderson E, Pappas T, Gangnon R, Evans MD, et al. Association of rhinovirus species with common cold and asthma symptoms and bacterial pathogens. J Allergy Clin Immunol. 2018;141(2):822–824.e9.

    Article  Google Scholar 

  30. Gern JE. The urban environment and childhood asthma study. J Allergy Clin Immunol. 2010;125(3):545–9.

    Article  Google Scholar 

  31. Larkin EK, Gebretsadik T, Moore ML, Anderson LJ, Dupont WD, Chappell JD, Minton PA, Peebles RS Jr, Moore PE, Valet RS, et al. Objectives, design and enrollment results from the Infant Susceptibility to Pulmonary Infections and Asthma Following RSV Exposure Study (INSPIRE). BMC Pulm Med. 2015;15:45.

    Article  Google Scholar 

  32. Lemanske RF Jr. The childhood origins of asthma (COAST) study. Pediatr Allergy Immunol. 2002;13(Suppl 15):38–43.

    Article  Google Scholar 

  33. Wisconsin QuickFacts. Accessed 13 July 2019.

  34. von Mutius E, Schmid S, Group PS. The PASTURE project: EU support for the improvement of knowledge about risk factors and preventive factors for atopy in Europe. Allergy. 2006;61(4):407–13.

    Article  Google Scholar 

  35. Ege MJ, Herzum I, Buchele G, Krauss-Etschmann S, Lauener RP, Roponen M, Hyvarinen A, Vuitton DA, Riedler J, Brunekreef B et al. Prenatal exposure to a farm environment modifies atopic sensitization at birth. J Allergy Clin Immunol 2008; 122(2):407–12, 412 e401–4.

    Article  Google Scholar 

  36. VanWormer JJ, Barnes KL, Waring SC, Keifer MC. Socio-environmental risk factors for medically-attended agricultural injuries in Wisconsin dairy farmers. Injury. 2017;48(7):1444–50.

    Article  Google Scholar 

  37. Deng Q, Lu C, Li Y, Sundell J, Dan N. Exposure to outdoor air pollution during trimesters of pregnancy and childhood asthma, allergic rhinitis, and eczema. Environ Res. 2016;150:119–27.

    Article  CAS  Google Scholar 

  38. Deng Q, Lu C, Norback D, Bornehag CG, Zhang Y, Liu W, Yuan H, Sundell J. Early life exposure to ambient air pollution and childhood asthma in China. Environ Res. 2015;143(Pt A):83–92.

    Article  CAS  Google Scholar 

  39. Norback D, Lu C, Zhang Y, Li B, Zhao Z, Huang C, Zhang X, Qian H, Sun Y, Sundell J, et al. Onset and remission of childhood wheeze and rhinitis across China—Associations with early life indoor and outdoor air pollution. Environ Int. 2018;123:61–9.

    Article  Google Scholar 

  40. Norback D, Lu C, Zhang Y, Li B, Zhao Z, Huang C, Zhang X, Qian H, Sundell J, Deng Q. Common cold among pre-school children in China—associations with ambient PM10 and dampness, mould, cats, dogs, rats and cockroaches in the home environment. Environ Int. 2017;103:13–22.

    Article  CAS  Google Scholar 

  41. Clark NA, Demers PA, Karr CJ, Koehoorn M, Lencar C, Tamburic L, Brauer M. Effect of early life exposure to air pollution on development of childhood asthma. Environ Health Perspect. 2010;118(2):284–90.

    Article  CAS  Google Scholar 

  42. Mallol J, Crane J, von Mutius E, Odhiambo J, Keil U, Stewart A, Group IPTS. The International Study of Asthma and Allergies in Childhood (ISAAC) Phase Three: a global synthesis. Allergol Immunopathol (Madr). 2013;41(2):73–85.

    Article  Google Scholar 

  43. Rosenstock L. Textbook of clinical occupational and environmental medicine. 2nd ed. Philadelphia: Elsevier Saunders; 2005.

    Google Scholar 

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We are grateful to the study families for their time and continued commitment to the WISC study. We thank Dr. Alkis Togias and Steve Sigelman RN, MHA (NIAID, NIH) for assistance and thoughtful input with our study protocol and study materials. We thank Professor Erika von Mutius (University of Munich) for sharing questionnaires and methods from the GABRIELA and PASTURE studies, and for her many helpful suggestions in designing the WISC study.


The major funding for design of the study and collection is from the NIH-NIAID grant U19 AI104317 (PI: Gern). Additional support was provided by the Clinical and Translational Science Award (CTSA) program, through the NIH National Center for Advancing Translational Sciences (NCATS), grant UL1TR000427 (PI: Brassier/Burnside) the charitable donors to the Marshfield Clinic Health System Foundation, and the Upper Midwest Agricultural Safety and Health Center (UMASH) NIH-NIOSH U54 OH010170 (PI: Alexander, pilot project PI: Seroogy).

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Authors and Affiliations




Conception and study design (CMS, JJV, KLB, REG, MCK, CGB, JEG). Consenting, data/sample acquisition, and management of data/biospecimens (CMS, BFO, MDE, TJ, DC, KLB, TK, AD, JM). Drafting and writing of the manuscript (CMS, JJV, BFO, MDE, MCK, CGB, JEG). All authors read and approved the final manuscript.

Corresponding author

Correspondence to Christine M. Seroogy.

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Ethics approval and consent to participate

All study activities and procedures were approved by the MCHS (KEI10613) and University of Wisconsin (2012-1056) Human Subjects Institutional Review Boards. Informed consent to participate in this study was obtained from all participants.

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Not applicable.

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The authors declare that they have no competing interests.

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Additional file

Additional file 1: Table S1.

Detailed Inclusion and Exclusion Criteria. Figure S1. Effect of Processing time on assay read-outs. Figure S2. Inter-assay variability. Figure S3. Intra-assay variability. Figure S4. WISC Study farm group dairy cow numbers.

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Seroogy, C.M., VanWormer, J.J., Olson, B.F. et al. Respiratory health, allergies, and the farm environment: design, methods and enrollment in the observational Wisconsin Infant Study Cohort (WISC): a research proposal. BMC Res Notes 12, 423 (2019).

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