@article{muyyarikkandy_schlesinger_ren_gao_liefeld_reed_amalaradjou_2023, title={In ovo probiotic supplementation promotes muscle growth and development in broiler embryos}, volume={102}, ISSN={["1525-3171"]}, url={https://doi.org/10.1016/j.psj.2023.102744}, DOI={10.1016/j.psj.2023.102744}, abstractNote={In chickens, muscle development during embryonic growth is predominantly by myofiber hyperplasia. Following hatch, muscle growth primarily occurs via hypertrophy of the existing myofibers. Since myofiber number is set at hatch, production of more muscle fibers during embryonic growth would provide a greater myofiber number at hatch and potential for posthatch muscle growth by hypertrophy. Therefore, to improve performance in broilers, this study investigated the effect of in ovo spray application of probiotics on overall morphometry and muscle development in broiler embryos. For the study, fertile Ross 308 eggs were sprayed with different probiotics; Lactobacillus paracasei DUP 13076 (LP) and L. rhamnosus NRRL B 442 (LR) prior to and during incubation. The embryos were sacrificed on d 7, 10, 14, and 18 for embryo morphometry and pectoralis major muscle (PMM) sampling. Muscle sections were stained and imaged to quantify muscle fiber density (MFD), myofiber cross-sectional area (CSA), and nuclei density. Additionally, gene expression assays were performed to elucidate the effect of probiotics on myogenic genes. In ovo probiotic supplementation was found to significantly improve embryo weight, breast weight, and leg weight (P < 0.05). Further, histological analysis of PMM revealed a significant increase in MFD and nuclei number in the probiotic-treated embryos when compared to the control (P < 0.05). In 18-day-old broiler embryos, myofibers in the treatment group had a significantly smaller CSA (LP: 95.27 ± 3.28 μm2, LR: 178.84 ± 15.1 μm2) when compared to the control (211.41 ± 15.67 μm2). This decrease in CSA was found to be associated with a concomitant increase in MFD (fibers/mm2) in the LP (13,647 ± 482.15) and LR (13,957 ± 463.13) group when compared to the control (7,680 ± 406.78). Additionally, this increase in myofibrillar hyperplasia in the treatment groups was associated with upregulation in the expression of key genes regulating muscle growth including MYF5, MYOD, MYOG, and IGF-1. In summary, in ovo spray application of probiotics promoted overall embryo growth and muscle development in broilers.}, number={7}, journal={POULTRY SCIENCE}, author={Muyyarikkandy, Muhammed Shafeekh and Schlesinger, Maya and Ren, Yuying and Gao, Mairui and Liefeld, Amanda and Reed, Sarah and Amalaradjou, Mary Anne}, year={2023}, month={Jul} }
 @article{muyyarikkandy_mathew_kuttappan_amalaradjou_2023, title={Research Note: In ovo and in-feed probiotic supplementation improves layer embryo and pullet growth}, volume={102}, ISSN={["1525-3171"]}, url={https://doi.org/10.1016/j.psj.2023.103092}, DOI={10.1016/j.psj.2023.103092}, abstractNote={Probiotics are widely used as feed supplements in the poultry industry to promote growth and performance in chickens. Specifically, this supplementation starts around the time of lay and continues through the production cycle in laying hens. However, the embryonic period is critical to the growth and development of metabolically active organs thereby influencing subsequent health and productivity in adult birds. Therefore, the present study investigated the potential use of probiotics to promote embryonic growth in layers. Further, a pilot grow-out study was conducted to evaluate the effect of in ovo and in-feed probiotic application on pullet growth. For the study, fertile White Leghorn eggs were sprayed with phosphate buffered saline (control; CON) or probiotic cocktail (IO; Lactobacillus paracasei DUP 13076 and L. rhamnosus NRRL B 442) prior to and during incubation. The embryos were sacrificed on day 7, 10, 14 and 18 of incubation for embryo morphomtery. On day 18, remaining eggs were set in the hatcher to assess hatchability and hatchling morphometry. For the pullet trial, hatchlings were raised on feed with or without probiotics until week 5. Pullets were sacrificed weekly, and morphometric parameters were recorded. Results of our study demonstrate that in ovo probiotic application significantly improved relative embryo weight, crown rump length, hatchability and hatchling weight when compared to the control (P < 0.05). Further, this enhanced embryonic development was associated with a concomitant increase in post-hatch growth. Specifically, pullets raised from probiotic-sprayed eggs had significantly improved crown-rump length, tibial length, tibial bone weight and body weight when compared to the control (P < 0.05). Moreover, among the different treatment schemes employed in this study [CON (no probiotics), in-feed only (IF), in ovo only (IO) and in ovo and in-feed probiotic supplementation (IOIF)], sustained probiotic supplementation (IOIF) was found to be the most effective in promoting growth. Therefore, in ovo and in-feed probiotic supplementation could be employed to promote embryo and pullet growth to support subsequent performance in layers.}, number={12}, journal={POULTRY SCIENCE}, author={Muyyarikkandy, Muhammed Shafeekh and Mathew, Elza and Kuttappan, Deepa and Amalaradjou, Mary Anne}, year={2023}, month={Dec} }
 @article{muyyarikkandy_parzygnat_thakur_2023, title={Uncovering changes in microbiome profiles across commercial and backyard poultry farming systems}, volume={11}, ISSN={["2165-0497"]}, url={https://doi.org/10.1128/spectrum.01682-23}, DOI={10.1128/spectrum.01682-23}, abstractNote={ABSTRACT}, number={5}, journal={MICROBIOLOGY SPECTRUM}, author={Muyyarikkandy, Muhammed Shafeekh and Parzygnat, Jessica and Thakur, Siddhartha}, editor={Steven, BlaireEditor}, year={2023} }
 @article{vinithakumari_padhi_hernandez_lin_dunkerson-kurzhumov_showman_breitzman_stokes_sulaiman_tangudu_et al._2022, title={Clostridioides difficile Infection Dysregulates Brain Dopamine Metabolism}, volume={10}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85129303614&partnerID=MN8TOARS}, DOI={10.1128/spectrum.00073-22}, abstractNote={
            The gut-brain axis is thought to play a significant role in the development and manifestation of neurologic diseases. This study reports significant alterations in the brain dopamine metabolism in mice infected with
            C. difficile
            , an important pathogen that overgrows in the gut after prolonged antibiotic therapy. Such alterations in specific brain regions may have an effect on the precipitation or manifestation of neurodevelopmental disorders in humans.
          }, number={2}, journal={Microbiology Spectrum}, publisher={American Society for Microbiology}, author={Vinithakumari, Akhil A. and Padhi, Piyush and Hernandez, Belen and Lin, Susanne Je-Han and Dunkerson-Kurzhumov, Aaron and Showman, Lucas and Breitzman, Matthew and Stokes, Caroline and Sulaiman, Yousuf and Tangudu, Chandra and et al.}, editor={Carroll, Karen C.Editor}, year={2022} }
 @article{muyyarikkandy_parzygnat_thakur_2022, title={Uncovering Changes in Microbiome Profiles Across Commercial and Backyard Poultry Farming Systems}, url={https://doi.org/10.1101/2022.12.22.521647}, DOI={10.1101/2022.12.22.521647}, abstractNote={Abstract}, journal={bioRxiv}, author={Muyyarikkandy, Muhammed Shafeekh and Parzygnat, Jessica and Thakur, Siddhartha}, year={2022}, month={Dec} }
 @article{vinithakumari_padhi_hernandez_lin_dunkerson-kurzhumov_showman_breitzman_stokes_sulaiman_tangudu_et al._2021, title={Clostridioides difficile infection increases circulating p-cresol levels and dysregulates brain dopamine metabolism: Linking gut-brain axis to autism spectrum disorders?}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85119512717&partnerID=MN8TOARS}, DOI={10.1101/2021.10.22.465382}, abstractNote={Abstract}, journal={bioRxiv}, author={Vinithakumari, A.A. and Padhi, P. and Hernandez, B. and Lin, S.J.-H. and Dunkerson-Kurzhumov, A. and Showman, L. and Breitzman, M. and Stokes, C. and Sulaiman, Y. and Tangudu, C. and et al.}, year={2021} }
 @article{kattapuram_zhang_muyyarikkandy_surugihalli_muralidaran_gregory_sunny_2021, title={Dietary Macronutrient Composition Differentially Modulates the Remodeling of Mitochondrial Oxidative Metabolism during NAFLD}, volume={11}, url={https://doi.org/10.3390/metabo11050272}, DOI={10.3390/metabo11050272}, abstractNote={Diets rich in fats and carbohydrates aggravate non-alcoholic fatty liver disease (NAFLD), of which mitochondrial dysfunction is a central feature. It is not clear whether a high-carbohydrate driven ‘lipogenic’ diet differentially affects mitochondrial oxidative remodeling compared to a high-fat driven ‘oxidative’ environment. We hypothesized that the high-fat driven ‘oxidative’ environment will chronically sustain mitochondrial oxidative function, hastening metabolic dysfunction during NAFLD. Mice (C57BL/6NJ) were reared on a low-fat (LF; 10% fat calories), high-fat (HF; 60% fat calories), or high-fructose/high-fat (HFr/HF; 25% fat and 34.9% fructose calories) diet for 10 weeks. De novo lipogenesis was determined by measuring the incorporation of deuterium from D2O into newly synthesized liver lipids using nuclear magnetic resonance (NMR) spectroscopy. Hepatic mitochondrial metabolism was profiled under fed and fasted states by the incubation of isolated mitochondria with [13C3]pyruvate, targeted metabolomics of tricarboxylic acid (TCA) cycle intermediates, estimates of oxidative phosphorylation (OXPHOS), and hepatic gene and protein expression. De novo lipogenesis was higher in the HFr/HF mice compared to their HF counterparts. Contrary to our expectations, hepatic oxidative function after fasting was induced in the HFr/HF group. This differential induction of mitochondrial oxidative function by the high fructose-driven ‘lipogenic’ environment could influence the progressive severity of hepatic insulin resistance.}, number={5}, journal={Metabolites}, author={Kattapuram, Nathan and Zhang, Christine and Muyyarikkandy, Muhammed S. and Surugihalli, Chaitra and Muralidaran, Vaishna and Gregory, Tabitha and Sunny, Nishanth E.}, year={2021}, month={Apr} }
 @inproceedings{parzygnat_muyyarikkandy_fosnaught_crespo_thakur_2021, title={Investigation of the prevalence and antimicrobial resistance profiles of Salmonella and extended-spectrum betalactamase E. coli isolated from backyard broiler farms in the southeastern United States}, author={Parzygnat, J.L. and Muyyarikkandy, M.S. and Fosnaught, M. and Crespo, R and Thakur, S.}, year={2021}, month={Oct} }
 @article{kuttappan_muyyarikkandy_mathew_amalaradjou_2021, title={Listeria monocytogenes Survival on Peaches and Nectarines under Conditions Simulating Commercial Stone-Fruit Packinghouse Operations}, volume={18}, ISSN={["1660-4601"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85114044031&partnerID=MN8TOARS}, DOI={10.3390/ijerph18179174}, abstractNote={Recent recalls of stone fruit due to potential Listeria contamination and associated foodborne outbreaks highlight the risk for pathogen transmission through stone-fruit consumption. Particularly, surface contamination of fruits increases the risk for cross-contamination of produce during processing and storage. This highlights the need for quality control in stone fruits intended for consumption. To develop effective food safety practices, it is essential to determine the critical factors during stone-fruit processing that influence Listeria survival. Therefore, this study evaluated the ability of Listeria to survive on peaches and nectarines under simulated stone-fruit loading and staging, waxing and fungicide application and storage conditions. The results of our study indicate that current stone-fruit handling conditions do not favor Listeria growth. However, once fruit is contaminated, Listeria can survive on the fruit surface in significant numbers under current processing conditions. Therefore, there is a need to develop and implement preventive controls at the stone-fruit packinghouse to prevent Listeria contamination and deter pathogen persistence.}, number={17}, journal={INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH}, author={Kuttappan, Deepa and Muyyarikkandy, Muhammed S. and Mathew, Elza and Amalaradjou, Mary Anne}, year={2021}, month={Sep} }
 @article{muyyarikkandy_mcleod_maguire_mahar_kattapuram_zhang_surugihalli_muralidaran_vavilikolanu_mathews_et al._2020, title={Branched chain amino acids and carbohydrate restriction exacerbate ketogenesis and hepatic mitochondrial oxidative dysfunction during NAFLD}, volume={34}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85091220604&partnerID=MN8TOARS}, DOI={10.1096/fj.202001495R}, abstractNote={Mitochondrial adaptation during non‐alcoholic fatty liver disease (NAFLD) include remodeling of ketogenic flux and sustained tricarboxylic acid (TCA) cycle activity, which are concurrent to onset of oxidative stress. Over 70% of obese humans have NAFLD and ketogenic diets are common weight loss strategies. However, the effectiveness of ketogenic diets toward alleviating NAFLD remains unclear. We hypothesized that chronic ketogenesis will worsen metabolic dysfunction and oxidative stress during NAFLD. Mice (C57BL/6) were kept (for 16‐wks) on either a low‐fat, high‐fat, or high‐fat diet supplemented with 1.5X branched chain amino acids (BCAAs) by replacing carbohydrate calories (ketogenic). The ketogenic diet induced hepatic lipid oxidation and ketogenesis, and produced multifaceted changes in flux through the individual steps of the TCA cycle. Higher rates of hepatic oxidative fluxes fueled by the ketogenic diet paralleled lower rates of de novo lipogenesis. Interestingly, this metabolic remodeling did not improve insulin resistance, but induced fibrogenic genes and inflammation in the liver. Under a chronic “ketogenic environment,” the hepatocyte diverted more acetyl‐CoA away from lipogenesis toward ketogenesis and TCA cycle, a milieu which can hasten oxidative stress and inflammation. In summary, chronic exposure to ketogenic environment during obesity and NAFLD has the potential to aggravate hepatic mitochondrial dysfunction.}, number={11}, journal={FASEB Journal}, publisher={Wiley}, author={Muyyarikkandy, Muhammed S. and McLeod, Marc and Maguire, Meghan and Mahar, Rohit and Kattapuram, Nathan and Zhang, Christine and Surugihalli, Chaitra and Muralidaran, Vaishna and Vavilikolanu, Kruthi and Mathews, Clayton E. and et al.}, year={2020}, pages={14832–14849} }
 @inproceedings{kuttappan_muyyarikkandy_amalaradjou_2019, title={Dietary Supplementation of Cheese Modulates Inflammatory Response and Alleviates Colitis in Mice}, author={Kuttappan, D.A. and Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2019} }
 @inproceedings{kuttappan_muyyarikkandy_amalaradjou_2019, title={Effect Of Cheese Starter Cultures In The Management Of IBD}, author={Kuttappan, D.A. and Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2019}, month={Mar} }
 @article{surugihalli_porter_chan_farley_maguire_zhang_kattapuram_muyyarikkandy_liu_sunny_2019, title={Hepatic Mitochondrial Oxidative Metabolism and Lipogenesis Synergistically Adapt to Mediate Healthy Embryonic-to-Neonatal Transition in Chicken}, volume={9}, ISSN={["2045-2322"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85077324012&partnerID=MN8TOARS}, DOI={10.1038/s41598-019-56715-1}, abstractNote={Abstract}, number={1}, journal={SCIENTIFIC REPORTS}, author={Surugihalli, Chaitra and Porter, Tom E. and Chan, Angela and Farley, Linda S. and Maguire, Meghan and Zhang, Christine and Kattapuram, Nathan and Muyyarikkandy, Muhammed S. and Liu, Hsiao-Ching and Sunny, Nishanth E.}, year={2019}, month={Dec} }
 @inproceedings{muyyarikkandy_maguire_zhang_kattapuram_muralidaran_surugihalli_sunny_2019, title={Impact of Branched Chain Amino Acid Supplementation on Hepatic Mitochondrial Metabolism in Mice with Non-alcoholic Fatty Liver Disease}, author={Muyyarikkandy, M.S. and Maguire, M. and Zhang, C. and Kattapuram, N. and Muralidaran, V. and Surugihalli, C. and Sunny, N.E.}, year={2019}, month={Jun} }
 @article{muyyarikkandy_maguire_zhang_kattapuram_muralidaran_surugihalli_sunny_2019, title={Impact of Branched Chain Amino Acid Supplementation on Hepatic Mitochondrial Metabolism in Mice with Non-alcoholic Fatty Liver Disease (P08-136-19)}, volume={3}, ISSN={2475-2991}, url={http://dx.doi.org/10.1093/cdn/nzz044.p08-136-19}, DOI={10.1093/cdn/nzz044.p08-136-19}, abstractNote={
 
 
 Elevated circulating branched chain amino acid (BCAA) levels are correlated with the development of insulin resistance and type 2 diabetes mellitus in humans. On the other hand, BCAA supplementation has been shown to be beneficial in improving insulin resistance during chronic liver disease. Furthermore, there is recent evidence of significant crosstalk between BCAA and mitochondrial lipid metabolism. Considering the central role of dysfunctional mitochondrial lipid metabolism in diet-induced obesity and non-alcoholic fatty liver disease (NAFLD), our objective was to determine the impact of dietary BCAA supplementation on hepatic mitochondrial function, in a diet-induced mouse model of NAFLD. We hypothesized that the dietary supplementation of BCAA, together with a high fat diet, will exacerbate hepatic mitochondrial dysfunction during NAFLD.
 
 
 
 C57BL/6NJ mice were fed with a control (10% kcal fat), high fat (HF; 60% kcal fat), or HF diet supplemented with BCAA (BA; 60% kcal fat; 1.5X BCAA) diet for 16 weeks. Livers from these mice were used for mitochondrial isolation, total liver and mitochondrial protein estimation, determination of amino acids and Kreb's cycle intermediates by mass spectrometry, and gene expression profiles.
 
 
 
 While the liver weights (g ± SEM) of HF fed mice (2.6 ± 0.36) were significantly higher than the control mice (1.5 ± 0.19), BCAA supplemented mice had significantly lower liver weights than the HF fed mice (1.8 ± 0.28). Hepatic mitochondrial protein content (µg/g liver ± SEM) was enriched in BCAA supplemented mice compared to their HF diet fed counterparts (BA, 3858 ± 476; HF, 2635 ± 394; P ˂ 0.05). Many of the organic acid intermediates of the Kreb's cycle were significantly lower in the liver of HF fed mice. Interestingly, BCAA supplementation (BA) with HF feeding restored hepatic organic acid intermediates to similar levels observed in control mice. Further, HF and BA feeding, both downregulated lipogenic gene expression (e.g., Fasn, Scd1, Acly) in the liver.
 
 
 
 Our results suggest that BCAA supplementation enhanced hepatic mitochondrial biogenesis and oxidative metabolism in the liver of mice with NAFLD. High-fat diets which significantly suppressed the rates of de novo lipogenesis, could have provided the BCAAs, a metabolic milieu favorable for the induction of mitochondrial activity.
 
 
 
 National Institutes of Health (R01).
}, number={Supplement_1}, journal={Current Developments in Nutrition}, publisher={Oxford University Press (OUP)}, author={Muyyarikkandy, Muhammed and Maguire, Meghan and Zhang, Christine and Kattapuram, Nathan and Muralidaran, Vaishna and Surugihalli, Chaitra and Sunny, Nishanth}, year={2019}, month={Jun}, pages={nzz044.P08–136-19} }
 @inproceedings{kuttappan_muyyarikkandy_fragomeni_amalaradjou_2019, title={Impact of Dietary Supplementation of Cheese on Microbiome and Metabolome in Mice}, author={Kuttappan, D.A. and Muyyarikkandy, M.S. and Fragomeni, B. and Amalaradjou, M.A.}, year={2019}, month={Jun} }
 @inproceedings{zhang_kattapuram_muyyarikkandy_maguire_muralidaran_surugihalli_sunny_2019, title={The Effect of Branched-Chain Amino Acid Supplementation on Hepatic Lipid Metabolism}, author={Zhang, C. and Kattapuram, N. and Muyyarikkandy, M.S. and Maguire, M. and Muralidaran, V. and Surugihalli, C. and Sunny, N.E.}, year={2019}, month={May} }
 @article{feng_muyyarikkandy_brown_amalaradjou_2018, title={Attachment and Survival of <i>Escherichia coli</i> O157:H7 on In-Shell Hazelnuts}, volume={15}, url={http://www.mdpi.com/1660-4601/15/6/1122}, DOI={10.3390/ijerph15061122}, abstractNote={The multistate Escherichia coli (E. coli) O157:H7 outbreak associated with in-shell hazelnuts highlights the pathogen’s ability to involve non-traditional vehicles in foodborne infections. Furthermore, it underscores significant gaps in our knowledge of pathogen survivability and persistence on nuts. Therefore, this study investigated the ability of E. coli O157:H7 to attach and survive on in-shell hazelnuts. In-shell hazelnuts were inoculated with a four-strain mixture of E. coli O157:H7 at 7.6 log colony forming units (CFU)/nut by wet or dry inoculation, stored at ambient conditions (24 ± 1 °C; 40% ± 3% relative humidity (RH) and sampled for twelve months. For the attachment assay, in-shell hazelnuts were inoculated and the adherent population was enumerated at 30 s−1 h following inoculation. Irrespective of the inoculation method, ~5 log CFU of adherent E. coli O157:H7 was recovered from the hazelnuts as early as 30 s after inoculation. Conversely, pathogen survival was significantly reduced under dry inoculation with samples being enrichment negative after five months of storage (p < 0.05). On the other hand, wet inoculation led to a significantly longer persistence of the pathogen with ~3 log CFU being recovered from the in-shell nuts at 12 months of storage (p < 0.05). These results indicate that E. coli O157:H7 can survive in significant numbers on in-shell hazelnuts when stored under ambient conditions.}, number={6}, journal={International Journal of Environmental Research and Public Health}, author={Feng, L. and Muyyarikkandy, M.S. and Brown, S.R.B. and Amalaradjou, M.A.}, year={2018}, month={May} }
 @inproceedings{feng_muyyarikkandy_amalaradjou_2018, title={Attachment and Survival of E.coli O157: H7 on in-shell hazelnuts}, author={Feng, L. and Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2018}, month={Jul} }
 @article{mathew_muyyarikkandy_kuttappan_amalaradjou_2018, title={Attachment of Salmonella enterica on mangoes and survival under conditions simulating commercial mango packing house and importer facility}, volume={9}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85049858063&partnerID=MN8TOARS}, DOI={10.3389/fmicb.2018.01519}, abstractNote={Consumption of raw mangoes has led to multiple Salmonella-associated foodborne outbreaks in the United States. Although several studies have investigated the epiphytic fitness of Salmonella on fresh produce, there is sparse information available on the survival of Salmonella on mangoes under commercial handling and storage conditions. Hence, the objective of the study was to evaluate the survival of Salmonella on mangoes under ambient conditions simulating the mango packing house and importer facility. Further, the ability of the pathogen to adhere and attach on to the mango fructoplane was also investigated. For the attachment assays, mango skin sections were inoculated with fifty microliters of S. Newport suspension (6.5 log CFU/skin section) and minimum time required for adhesion and attachment were recorded. With the survival assays, unwaxed mangoes were spot inoculated with the Salmonella cocktail to establish approximately 4 and 6.5 log CFU/mango. The fruits were then subjected to different storage regimens simulating fruit unloading, waxing, and storage at the packing house and ripening and storage at the importer facility. Results of our study reveal that Salmonella was able to adhere on to the fructoplane immediately after contact. Further, formation of attachment structures was seen as early as 2 min following inoculation. With the survival assays, irrespective of the inoculum levels, no significant increase or decrease in pathogen population was observed when fruit were stored either at ambient (29–32°C and RH 85–95%, for 48 h), ripening (20–22°C and RH 90–95% for 9 days) or refrigerated storage (10–15°C and 85–95% for 24–48 h) conditions. Therefore, once contaminated, mangoes could serve as potential vehicles in the transmission of Salmonella along the post-harvest environment. Hence development and adoption of effective food safety measures are warranted to promote the microbiological safety of mangoes.}, number={JUL}, journal={Frontiers in Microbiology}, author={Mathew, E.N. and Muyyarikkandy, M.S. and Kuttappan, D. and Amalaradjou, M.A.}, year={2018} }
 @article{muyyarikkandy_alqahtani_mandoiu_amalaradjou_2018, title={Draft genome sequence of Lactobacillus paracasei DUP 13076, which exhibits potent antipathogenic effects against Salmonella enterica serovars Enteritidis, Typhimurium, and Heidelberg}, volume={6}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85042126810&partnerID=MN8TOARS}, DOI={10.1128/genomeA.00065-18}, abstractNote={ABSTRACT}, number={7}, journal={Genome Announcements}, publisher={American Society for Microbiology}, author={Muyyarikkandy, Muhammed Shafeekh and Alqahtani, Fahad H. and Mandoiu, Ion and Amalaradjou, Mary Anne}, year={2018} }
 @article{muyyarikkandy_alqahtani_mandoiu_amalaradjou_2018, title={Draft genome sequence of Lactobacillus rhamnosus NRRL B-442, a potential probiotic strain}, volume={6}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85042090683&partnerID=MN8TOARS}, DOI={10.1128/genomeA.00046-18}, abstractNote={ABSTRACT}, number={7}, journal={Genome Announcements}, publisher={American Society for Microbiology}, author={Muyyarikkandy, Muhammed Shafeekh and Alqahtani, Fahad H. and Mandoiu, Ion and Amalaradjou, Mary Anne}, year={2018} }
 @book{muyyarikkandy_darre_amalaradjou_2018, title={Early (in-ovo) administration of probiotics to promote growth in broiler chicken}, url={http://projects.sare.org/sare_project/GNE16-128}, number={GNE16- 128}, author={Muyyarikkandy, M.S. and Darre, M.J. and Amalaradjou, M.A.}, year={2018} }
 @inproceedings{muyyarikkandy_mathew_kuttappan_darre_amalaradjou_2018, title={Effect of early (in-ovo) and in-feed supplementation of probiotics on growth and development in broilers}, author={Muyyarikkandy, M.S. and Mathew, E.N. and Kuttappan, D. and Darre, M. and Amalaradjou, M.A.}, year={2018}, month={Apr} }
 @article{mathew_muyyarikkandy_bedell_amalaradjou_2018, title={Efficacy of Chlorine, Chlorine Dioxide, and Peroxyacetic Acid in Reducing Salmonella Contamination in Wash Water and on Mangoes Under Simulated Mango Packinghouse Washing Operations}, volume={2}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85049841410&partnerID=MN8TOARS}, DOI={10.3389/fsufs.2018.00018}, abstractNote={Salmonellosis associated with consumption of mangoes have been traced back to the use of contaminated wash water. This highlights the critical role of wash water disinfection in mango processing, affecting its quality, and safety. Moreover, steps unique to the post-harvest handling of mangoes also create a conducive environment for internalization of pathogens into the fruit pulp. Currently, no effective treatment exists to eliminate internalized pathogens from mangoes. Therefore, it is critical to prevent contamination on the fruit to avert pathogen internalization. So the present study evaluated the efficacy of chlorine (200 ppm), peroxyacetic acid (80 ppm) and chlorine dioxide (5 ppm) for reducing Salmonella populations on mangoes and in wash water under simulated mango packing house conditions. Nalidixic-acid resistant isolates of Salmonella Montevideo, S. Newport, S. Baildon, S. Braenderup and S. Poona were used in this study. Disinfectants were added to inoculated wash water (ca.7 log CFU/ml) and mangoes (var. Atualfo and Tommy Atkins) were washed under simulated dump tank wash (24°C for 2 min), hot water treatment (46°C for 75 and 110 min) and hydrocooling conditions (21°C for 30 min). Wash water and mangoes were collected at different times for microbiological analysis. Additionally, residual disinfectant concentration was monitored throughout the study. All the three disinfectant tested were effective in significantly reducing Salmonella populations in wash water and on mangoes during dump tank wash, hot water treatment and hydrocooling (p≤0.05). Specifically, no Salmonella was detected from samples treated with 200 ppm chlorine and 80 ppm PAA. On the other hand, Salmonella was consistently recovered from mango and water samples treated with chlorine dioxide (5 ppm). This reduced antimicrobial efficacy can be attributed to the sharp decline in residual chlorine dioxide concentrations in wash water. Further, reductions in residual chlorine and PAA concentrations were also observed over time. Therefore, to ensure the sustained antimicrobial activity of chlorine and PAA, it is critical to regularly monitor and replenish the disinfectant in wash water. However, given the laboratory scale of these experiments, further validation of these results on a commercial scale are warranted.}, journal={Frontiers in Sustainable Food Systems}, author={Mathew, E.N. and Muyyarikkandy, M.S. and Bedell, C. and Amalaradjou, M.A.}, year={2018} }
 @inproceedings{muyyarikkandy_mathew_schlesinger_kuttappan_darre_amalaradjou_2018, title={In-ovo and in-feed probiotic supplementation promotes overall growth and muscle development in broiler chicken}, author={Muyyarikkandy, M.S. and Mathew, E.N. and Schlesinger, M. and Kuttappan, D. and Darre, M. and Amalaradjou, M.A.}, year={2018}, month={Jul} }
 @inproceedings{vinayamohan_pellissery_surendran nair_muyyarikkandy_venkitanarayanan_2018, title={Inhibiting Horizontal Gene Transfer of Antibiotic Resistance between MDR Salmonella Heidelberg and E.  coli by Phytochemicals}, author={Vinayamohan, P. and Pellissery, A.J. and Surendran Nair, M. and Muyyarikkandy, M.S. and Venkitanarayanan, K.}, year={2018}, month={Jul} }
 @inproceedings{vinayamohan_pellissery_surendran nair_muyyarikkandy_venkitanarayanan_2018, title={Inhibiting Horizontal Gene Transfer of Antibiotic Resistance between MDR Salmonella Typhimurium and E. coli by Phytochemicals}, author={Vinayamohan, P. and Pellissery, A.J. and Surendran Nair, M. and Muyyarikkandy, M.S. and Venkitanarayanan, K.}, year={2018}, month={Jun} }
 @article{narayanan_nair_muyyarikkandy_amalaradjou_2018, title={Inhibition and Inactivation of Uropathogenic <i>Escherichia coli</i> Biofilms on Urinary Catheters by Sodium Selenite}, volume={19}, url={http://www.mdpi.com/1422-0067/19/6/1703}, DOI={10.3390/ijms19061703}, abstractNote={Urinary tract infections (UTI) are the most common hospital-acquired infections in humans and are caused primarily by uropathogenic Escherichia coli (UPEC). Indwelling urinary catheters become encrusted with UPEC biofilms that are resistant to common antibiotics, resulting in chronic infections. Therefore, it is important to control UPEC biofilms on catheters to reduce the risk for UTIs. This study investigated the efficacy of selenium for inhibiting and inactivating UPEC biofilms on urinary catheters. Urinary catheters were inoculated with UPEC and treated with 0 and 35 mM selenium at 37 °C for 5 days for the biofilm inhibition assay. In addition, catheters with preformed UPEC biofilms were treated with 0, 45, 60, and 85 mM selenium and incubated at 37 °C. Biofilm-associated UPEC counts on catheters were enumerated on days 0, 1, 3, and 5 of incubation. Additionally, the effect of selenium on exopolysacchride (EPS) production and expression of UPEC biofilm-associated genes was evaluated. Selenium at 35 mM concentration was effective in preventing UPEC biofilm formation on catheters compared to controls (p < 0.05). Further, this inhibitory effect was associated with a reduction in EPS production and UPEC gene expression. Moreover, at higher concentrations, selenium was effective in inactivating preformed UPEC biofilms on catheters as early as day 3 of incubation. Results suggest that selenium could be potentially used in the control of UPEC biofilms on urinary catheters.}, number={6}, journal={International Journal of Molecular Sciences}, author={Narayanan, A. and Nair, M.S. and Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2018}, month={Jun} }
 @inproceedings{kuttappan_muyyarikkandy_amalaradjou_2018, title={Listeria monocytogenes persistence on peaches and nectarines under commercial stone fruit processing conditions}, author={Kuttappan, D. and Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2018}, month={Jul} }
 @inproceedings{muyyarikkandy_amalaradjou_2018, title={Protective Cultures Inhibit Salmonella Enteritidis Colonization and Dissemination In Vitro}, author={Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2018}, month={Jul} }
 @inproceedings{schlesinger_muyyarikkandy_amalaradjou_2018, title={Temporal Changes in Muscle Development in the Chicken Embryo as Influenced by Probiotic Supplementation}, author={Schlesinger, M. and Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2018}, month={Apr} }
 @inproceedings{mathew_muyyarikkandy_amalaradjou_2017, title={Efficacy of Wash Water Disinfectants in Reducing Water-to-Mango Contamination by Salmonella under Simulated Mango Packing House Operations}, author={Mathew, E.N. and Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2017}, month={Jul} }
 @article{muyyarikkandy_amalaradjou_2017, title={Lactobacillus bulgaricus, lactobacillus rhamnosus and lactobacillus paracasei attenuate salmonella enteritidis, salmonella heidelberg and salmonella typhimurium colonization and virulence gene expression in vitro}, volume={18}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85034018151&partnerID=MN8TOARS}, DOI={10.3390/ijms18112381}, abstractNote={Salmonella Enteritidis (SE), Salmonella Typhimurium (ST), and Salmonella Heidelberg (SH) have been responsible for numerous outbreaks associated with the consumption of poultry meat and eggs. Salmonella colonization in chicken is characterized by initial attachment to the cecal epithelial cells (CEC) followed by dissemination to the liver, spleen, and oviduct. Since cecal colonization is critical to Salmonella transmission along the food chain continuum, reducing this intestinal association could potentially decrease poultry meat and egg contamination. Hence, this study investigated the efficacy of Lactobacillus delbreuckii sub species bulgaricus (NRRL B548; LD), Lactobacillus paracasei (DUP-13076; LP), and Lactobacillus rhamnosus (NRRL B442; LR) in reducing SE, ST, and SH colonization in CEC and survival in chicken macrophages. Additionally, their effect on expression of Salmonella virulence genes essential for cecal colonization and survival in macrophages was evaluated. All three probiotics significantly reduced Salmonella adhesion and invasion in CEC and survival in chicken macrophages (p < 0.05). Further, the probiotic treatment led to a significant reduction in Salmonella virulence gene expression (p < 0.05). Results of the study indicate that LD, LP, and LR could potentially be used to control SE, ST, and SH colonization in chicken. However, these observations warrant further in vivo validation.}, number={11}, journal={International Journal of Molecular Sciences}, author={Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2017} }
 @article{narayanan_muyyarikkandy_mooyottu_venkitanarayanan_amalaradjou_2017, title={Oral supplementation of trans-cinnamaldehyde reduces uropathogenic Escherichia coli colonization in a mouse model}, volume={64}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85010931712&partnerID=MN8TOARS}, DOI={10.1111/lam.12713}, abstractNote={Urinary tract infections (UTIs) in the United States result in more than 7 million hospital visits per year. Uropathogenic Escherichia coli (UPEC) is responsible for more than 80% of UTIs. Although antibiotics are the drug of choice to control UTIs, their repeated use has resulted in the emergence of antibiotic‐resistant UPEC. Thus, there is a need for effective alternate strategies to control UPEC infections. This study investigated the efficacy of trans‐cinnamaldehyde (TC), a food‐grade molecule present in cinnamon, in reducing UPEC colonization and pathogenesis in the lower UTI. Female C57BL/6 mice (6–8 weeks old) were fed ad libitum with 0, 0·1, 0·2 and 0·4% TC containing mouse chow for 10 days. Following TC supplementation, animals were experimentally infected with UPEC by transurethral catheterization. Mice were euthanized on days 1, 2 and 4 postinfection, and the bladder, urethra and urine were collected for bacterial enumeration. Prophylactic TC supplementation significantly (P ≤ 0·05) reduced UPEC colonization in the urinary bladder and urethra compared to the control. Results indicate that TC could potentially be used as an oral supplement to control UPEC‐associated lower UTIs, however, follow‐up clinical trials are warranted.}, number={3}, journal={Letters in Applied Microbiology}, author={Narayanan, A. and Muyyarikkandy, M.S. and Mooyottu, S. and Venkitanarayanan, K. and Amalaradjou, M.A.R.}, year={2017}, pages={192–197} }
 @inproceedings{narayanan_nair_muyyarikkandy_amalaradjou_venkitanarayanan_2016, title={Antibiofilm effect of Selenium on Uropathogenic Escherichia coli}, author={Narayanan, A. and Nair, M.S. and Muyyarikkandy, M.S. and Amalaradjou, M.A.R. and Venkitanarayanan, K.}, year={2016}, month={Jun} }
 @inproceedings{upadhyaya_fancher_yin_nair_chen_karumathil_bhattaram_upadhyay_muyyarikkandy_khan_et al._2016, title={Reducing Salmonella Heidelberg colonization in 21-day-old broiler chicks by in-feed supplementation of β-resorcylic acid and trans-cinnamaldehyde}, author={Upadhyaya, I. and Fancher, S. and Yin, H. and Nair, M.S. and Chen, C. and Karumathil, D. and Bhattaram, V. and Upadhyay, A. and Muyyarikkandy, M.S. and Khan, M. and et al.}, year={2016}, month={Jul} }
 @inproceedings{narayanan_muyyarikkandy_mooyottu_venkitanarayanan_amalaradjou_2015, title={Oral Supplementation of Trans-Cinnamaldehyde Reduces Uropathogenic Escherichia coli colonization in a Mouse Model}, author={Narayanan, A. and Muyyarikkandy, M.S. and Mooyottu, S. and Venkitanarayanan, K. and Amalaradjou, M.A.}, year={2015}, month={Apr} }
 @inproceedings{muyyarikkandy_amalaradjou_2015, title={Probiotics Inhibit Salmonella Enteritidis,
S. Heidelberg and S. Typhimurium DT104 Survival and Colonization In Vitro.}, author={Muyyarikkandy, M.S. and Amalaradjou, M.A.}, year={2015}, month={Mar} }
 @inproceedings{bhaskar_ravishankar_muyyarikkandy_kanjirakkuzhiyil_john_2014, title={Invasive pulmonary aspergillosis in Captive pigeons (Columba livia)}, author={Bhaskar, N. and Ravishankar, C. and Muyyarikkandy, M.S. and Kanjirakkuzhiyil, S. and John, K.}, year={2014} }
 @inproceedings{muyyarikkandy_ravishankar_panikkaparambil_kanjirakkuzhiyil_bhaskar_john_2014, title={Isolation of Pasteurella multocida subsp. Multocida from a fatal case of pasteurellosisin muscovy ducks (cairinamoschata)}, author={Muyyarikkandy, M.S. and Ravishankar, C. and Panikkaparambil, S. and Kanjirakkuzhiyil, S. and Bhaskar, N. and John, K.}, year={2014} }
 @inproceedings{kanjirakkuzhiyil_ravishankar_muyyarikkandy_bhaskar_john_2014, title={Isolation of Streptococcus canis from a closed wound of a dog}, author={Kanjirakkuzhiyil, S. and Ravishankar, C. and Muyyarikkandy, M.S. and Bhaskar, N. and John, K.}, year={2014} }
 @inproceedings{kanjirakkuzhiyil_ravishankar_muyyarikkandy_bhaskar_john_2013, title={Systemic Candidiasis in Pigeon: Isolation and Identification of The Yeast}, author={Kanjirakkuzhiyil, S. and Ravishankar, C. and Muyyarikkandy, M.S. and Bhaskar, N. and John, K.}, year={2013} }
 @inproceedings{theradiyil_muyyarikkandy_2011, title={Bulbar Conjunctival Pedicle Grafting for The Management of Penetrating Corneal Injury and Staphylomaina Cow}, author={Theradiyil, S.A. and Muyyarikkandy, M.S.}, year={2011} }