(hill, colin[Author] OR scanlan, pauline[Author] OR ross, r paul[Author] OR ross, paul r[Author] OR van sinderen, douwe[Author] OR massey, ruth[Author] OR shkoporov, andrey[Author] OR mahony, jennifer[Author] OR coffey, aidan[Author] OR lavelle, aong - Search Results

Year	Number of Results
2003	2
2004	5
2005	9
2006	14
2007	18
2008	14
2009	16
2010	15
2011	14
2012	24
2013	26
2014	48
2015	45
2016	55
2017	79
2018	80
2019	89
2020	103
2021	121
2022	85
2023	80
2024	97
2025	70
2026	58

1

Bifidobacterium longum subsp. infantis CCFM1445 Promotes Bone Growth in Growing Mice Via Modulating Gut Microbiota and Arginine Metabolism Pathway.

Li M, Li B, Chen H, Zhai Q, Stanton C, Ross RP, Zhao J, Chen W, Yang B. Li M, et al. Among authors: ross rp. Probiotics Antimicrob Proteins. 2026 Aug 3. doi: 10.1007/s12602-026-11160-1. Online ahead of print. Probiotics Antimicrob Proteins. 2026. PMID: 42545608

2

Early-Life Intervention with Bifidobacterium longum subsp. infantis CCFM1269 Alleviates Atopic Dermatitis in Mice via the Indole-3-Lactic Acid-AHR Signaling Pathway.

Huang Z, Zhang Q, Zhao J, Stanton C, Ross RP, Chen W, Yang B. Huang Z, et al. Among authors: ross rp. J Agric Food Chem. 2026 Aug 5;74(30):23495-23508. doi: 10.1021/acs.jafc.6c02316. J Agric Food Chem. 2026. PMID: 42479854

3

Lipid metabolism is a key central, systemic and gut microbial feature of the decline in rat hippocampal function during middle age.

Caruso MG, Dohm-Hansen S, Donoso F, Williams ZAP, Grabrucker S, Lavelle A, English JA, Nicolas S, O'Leary OF, Nolan YM. Caruso MG, et al. Among authors: lavelle a. Neurobiol Aging. 2026 Jul 10;168:23-36. doi: 10.1016/j.neurobiolaging.2026.07.001. Online ahead of print. Neurobiol Aging. 2026. PMID: 42447757

4

Application of QPS- and GRAS-status microorganisms and bacteriocins for sustainable food preservation.

Kamilari E, Stanton C, Hill C, Ross RP. Kamilari E, et al. Among authors: hill c, ross rp. Int J Food Microbiol. 2026 Nov 2;460:111942. doi: 10.1016/j.ijfoodmicro.2026.111942. Epub 2026 Jul 7. Int J Food Microbiol. 2026. PMID: 42435509 Review.

5

Genetic and enzymatic basis of xylooligosaccharide metabolism by Bifidobacterium longum.

Friess L, McAuliffe FM, Cotter PD, Munoz-Munoz J, Shiver AL, Huang KC, de Jong A, van Sinderen D. Friess L, et al. Among authors: van sinderen d. Gut Microbes. 2026 Dec 31;18(1):2701440. doi: 10.1080/19490976.2026.2701440. Epub 2026 Jul 10. Gut Microbes. 2026. PMID: 42430553 Free PMC article.

6

Comparative genomics and methylome profiling of Pseudolactococcus laudensis reveal signatures of niche adaptation and strain-level variation in mobile genetic elements and phage defence.

Soto-Serrano A, Vincze T, Roberts RJ, Krych L, Mahony J, Deptula P. Soto-Serrano A, et al. Among authors: mahony j. Microb Genom. 2026 Jul;12(7):001779. doi: 10.1099/mgen.0.001779. Microb Genom. 2026. PMID: 42405957 Free PMC article.

7

Bifidobacterium longum subsp. infantis CCFM1269 alleviates neonatal maternal separation-induced colic in rats by regulating serotonin metabolism, the NGF/TrkA signaling pathway and gut microbiota.

Wang H, Yu R, Stanton C, Ross RP, Zhao J, Chen W, Yang B. Wang H, et al. Food Funct. 2026 Jul 20;17(14):6634-6647. doi: 10.1039/d6fo02711c. Food Funct. 2026. PMID: 42396844

8

The role of the antimicrobial peptide nisin as a clean label food preservative.

Murphy IL, Hill C, Field D. Murphy IL, et al. Among authors: hill c. Curr Opin Microbiol. 2026 Aug;92:102786. doi: 10.1016/j.mib.2026.102786. Epub 2026 Jun 30. Curr Opin Microbiol. 2026. PMID: 42378947 Free article. Review.

9

A descriptive analysis of Streptococcus suis-associated disease in Irish pigs from 2010 to 2024: serotypes, pathology, and antimicrobial resistance.

Moriarty J, Osei EK, Brady C, Salgado S, Mignacca S, Kane F, Johnston D, Scanlon L, Flynn H, Beumer M, Reid R, Curran P, Mahony J, O'Doherty A, McGettrick S, Sánchez-Miguel C, Wilson M, Kenny JG. Moriarty J, et al. Among authors: mahony j. Ir Vet J. 2026 Jun 25. doi: 10.1186/s13620-026-00352-4. Online ahead of print. Ir Vet J. 2026. PMID: 42343489 Free article.

10

Identification and characterization of pumicyclin A, a novel circular bacteriocin from Bacillus pumilus with a dispensable leader peptide.

Liu F, Huang X, O'Connor PM, Miceli de Farias F, Buttimer C, Hill C, Kuipers OP, Ross RP. Liu F, et al. Among authors: hill c, ross rp. mBio. 2026 Jun 24:e0118826. doi: 10.1128/mbio.01188-26. Online ahead of print. mBio. 2026. PMID: 42339835 Free article.

11

Ten quick tips for classifying unknown bacteriophage.

Bastiaanssen FTS, Hill C, Shkoporov AN. Bastiaanssen FTS, et al. Among authors: hill c, shkoporov an. PLoS Comput Biol. 2026 Jun 23;22(6):e1014403. doi: 10.1371/journal.pcbi.1014403. eCollection 2026 Jun. PLoS Comput Biol. 2026. PMID: 42335155 Free PMC article. No abstract available.

12

Human serum triglycerides promote Staphylococcus aureus biofilm formation and antibiotic tolerance.

Ledger EVK, Horgan NE, Lynch D, Bateman LM, Massey RC. Ledger EVK, et al. Among authors: massey rc. NPJ Biofilms Microbiomes. 2026 Jun 21. doi: 10.1038/s41522-026-01064-x. Online ahead of print. NPJ Biofilms Microbiomes. 2026. PMID: 42323344 Free article.

13

Killer Peptide: an antibody-derived self-assembling peptide bridging antimicrobial and host-defense mechanisms.

Fernandez de Ullivarri M, O'Sullivan C, Ross RP, Hill C. Fernandez de Ullivarri M, et al. Among authors: hill c, ross rp. FEMS Microbiol Rev. 2026 Jan 2;50:fuag026. doi: 10.1093/femsre/fuag026. FEMS Microbiol Rev. 2026. PMID: 42314071 Free PMC article. Review.

14

Bifidobacterial genes upregulated by resistant starch investigated using multi-omics have orthologs in infant gut isolates.

Millar ME, Abele M, Harris HC, Koev TT, Telatin A, Kiu R, Van Sinderen D, Khimyak YZ, Ludwig C, Hall LJ, Warren FJ. Millar ME, et al. Among authors: van sinderen d. ISME Commun. 2026 May 17;6(1):ycag136. doi: 10.1093/ismeco/ycag136. eCollection 2026 Jan. ISME Commun. 2026. PMID: 42312184 Free PMC article.

15

Urogenital infections select for reduced ability to grow in a low-iron environment and reduced blood survival for Staphylococcus aureus.

Kearney KP, Ledger EVK, Recker M, Massey RC. Kearney KP, et al. Among authors: massey rc. Microbiology (Reading). 2026 Jun;172(6):001691. doi: 10.1099/mic.0.001691. Microbiology (Reading). 2026. PMID: 42258294 Free PMC article.

16

Dietary transition to an Indigenous Greenlandic diet induces instant shifts in gut microbiota composition - a pilot intervention study.

Bjørnsen MBW, Bourke KM, Stanton C, Ross RP, Hansen AJ, Hauptmann AL. Bjørnsen MBW, et al. Among authors: ross rp. Front Microbiomes. 2026 May 21;5:1832705. doi: 10.3389/frmbi.2026.1832705. eCollection 2026. Front Microbiomes. 2026. PMID: 42256258 Free PMC article.

17

Prevalent gut phages encode modular adhesins mediating epithelial binding and endoplasmic reticulum trafficking.

Apjok G, Sári T, Méhi O, Asbóth A, Barna L, Sala D, Gróf I, Vásárhelyi BM, Juhász S, Pál C, Horváth P, Migh E, Schneider G, Hill C, Deli M, Shkoporov A, Kintses B. Apjok G, et al. Among authors: hill c, shkoporov a. Nat Commun. 2026 Jun 4;17(1):6191. doi: 10.1038/s41467-026-74031-x. Nat Commun. 2026. PMID: 42236487 Free PMC article.

18

Probiotic Human Study Design and Reporting (PRODARE): Recommendations to Improve Research Practice.

Szajewska H, Benninga M, Chatonidi G, Costabile A, Lane J, van Loo-Bouwman CA, Mersh C, Morales PS, Walton G, Collado MC, Francavilla R, Fulling C, Holbech Jensen BA, Pascual DP, Ross PR, van den Akker CH, Vandenplas Y, Vidra N, Ouwehand AC. Szajewska H, et al. Among authors: ross pr. Adv Nutr. 2026 Jun 2:100668. doi: 10.1016/j.advnut.2026.100668. Online ahead of print. Adv Nutr. 2026. PMID: 42235685 Free article.

19

From microbiomes to predictive ecosystems: challenges and opportunities in artificial intelligence-based approaches.

Yu W, Qu H, Wang S, Shi M, Lu Y, Xia S, Stanton C, Zhang C, Wang Y, Zhu T, Zhu D, Zhou X, Ross RP, Zhou Z, Huang Y. Yu W, et al. Among authors: ross rp. Lancet Microbe. 2026 May 28:101428. doi: 10.1016/j.lanmic.2026.101428. Online ahead of print. Lancet Microbe. 2026. PMID: 42208955 Free article. Review.

20

Temporal dynamics of the S. thermophilus phage population in a yogurt production facility.

Marangon AM, Pujato SA, Rousseau GM, Tremblay DM, Lugli GA, Ventura M, Mahony J, Moineau S, Quiberoni A, Guglielmotti DM. Marangon AM, et al. Among authors: mahony j. Int J Food Microbiol. 2026 Sep 2;458:111869. doi: 10.1016/j.ijfoodmicro.2026.111869. Epub 2026 May 21. Int J Food Microbiol. 2026. PMID: 42202715

21

The Hungate1000 prokaryotic culture collection encodes a wide variety of bacteriocins.

Hourigan D, Draper L, Leahy SC, Attwood GT, Kelly WJ, Stanton C, Hill C, Ross RP. Hourigan D, et al. Among authors: hill c, ross rp. mSystems. 2026 Jun 23;11(6):e0019526. doi: 10.1128/msystems.00195-26. Epub 2026 May 27. mSystems. 2026. PMID: 42200614 Free PMC article.

22

Diversity and prevalence of dairy streptococcal phages in two European dairy fermentation facilities over a one-year period.

White K, Szafran JD, McDonnell B, Chawande G, Faherty-McGrath L, Lugli GA, Ventura M, Eraclio G, Volonté F, Dal Bello F, van Sinderen D, Mahony J. White K, et al. Among authors: mahony j, van sinderen d. Microb Genom. 2026 May;12(5):001729. doi: 10.1099/mgen.0.001729. Microb Genom. 2026. PMID: 42188674 Free PMC article.

23

Production of Multiple Variants of the Antimicrobial Sactipeptide Gnavucin D by the Human Gut Isolate Mediterraneibacter gnavus HB038.

Ding M, de Farias FM, O'Connor PM, Huang X, Ross FC, Kennedy EC, Hawkes CP, Hill C, Stanton C, Ross RP. Ding M, et al. Among authors: hill c. Microbiologyopen. 2026 Jun;15(3):e70315. doi: 10.1002/mbo3.70315. Microbiologyopen. 2026. PMID: 42178752 Free PMC article.

24

Chronic low-grade hippocampal inflammation blunts exercise-induced neurogenesis and alters the exercise-induced microglia transcriptome in the rat hippocampus.

Nicolas S, Caruso MG, Dohm-Hansen S, Foley T, Lucassen PJ, Mul JD, Lavelle A, English JA, O'Leary OF, Nolan YM. Nicolas S, et al. Among authors: lavelle a. Brain Behav Immun. 2026 May 23;137:106815. doi: 10.1016/j.bbi.2026.106815. Online ahead of print. Brain Behav Immun. 2026. PMID: 42178054 Free article.

25

A Systematic Review to Reassess the Formula for Early Life Growth.

Nilaweera KN, van Sinderen D, Cotter PD. Nilaweera KN, et al. Among authors: van sinderen d. Adv Nutr. 2026 Jul;17(7):100660. doi: 10.1016/j.advnut.2026.100660. Epub 2026 May 22. Adv Nutr. 2026. PMID: 42176955 Free PMC article.

26

Development of a synbiotic potential score as a quantitative approach for selecting putative synergistic strain-prebiotic candidates.

Wasiewska LA, Kareem L, Linares AG, Gunnigle E, Risso D, Laurie I, van Sinderen D, Clarke G, Schellekens H. Wasiewska LA, et al. Among authors: van sinderen d. J Appl Microbiol. 2026 Jun 3;137(6):lxag124. doi: 10.1093/jambio/lxag124. J Appl Microbiol. 2026. PMID: 42172045 Free article.

27

Rapid microbiome restructuring associated with medical exposure in remote Amazonian Indigenous communities.

Sun H, Noya-Alarcon O, Wang J, Daniel SG, Bittinger K, Mohamed W, Scanlan PD, Shah C, Kundu T, Blaser MJ, Mueller NT, Lander O, Bevilaqua M, Robles DV, Contreras M, Dominguez-Bello MG. Sun H, et al. Among authors: scanlan pd. Cell Rep. 2026 May 26;45(5):117343. doi: 10.1016/j.celrep.2026.117343. Epub 2026 May 20. Cell Rep. 2026. PMID: 42167245 Free article.

28

Eggerthella lenta evades bacteriophage through reversible megabase-scale inversions of capsular polysaccharide gene clusters.

Zhang S, Buttimer C, Trepka KR, Lam KN, Ramirez Hernandez LA, Soto-Perez P, Noecker C, Canigiula P, Ortega EF, Lee J, Ramirez L, Partipilo G, Lawrence HB 3rd, Bottacini F, Draper LA, Paul Ross R, Coffey A, Shkoporov A, Hill C, Turnbaugh PJ. Zhang S, et al. Among authors: coffey a, hill c, shkoporov a. Res Sq [Preprint]. 2026 May 5:rs.3.rs-9488777. doi: 10.21203/rs.3.rs-9488777/v1. Res Sq. 2026. PMID: 42147160 Free PMC article. Preprint.

29

Structural investigation of polysaccharides extracted from four Bifidobacterium breve strains.

Vinogradov E, Sadovskaya I, McDonnell B, Coughlan K, Bottacini F, van Sinderen D. Vinogradov E, et al. Among authors: van sinderen d. Carbohydr Res. 2026 Aug;566:109946. doi: 10.1016/j.carres.2026.109946. Epub 2026 Apr 28. Carbohydr Res. 2026. PMID: 42085944 Free article.

30

Eggerthella lenta evades bacteriophage through reversible megabase-scale inversions of capsular polysaccharide gene clusters.

Zhang S, Buttimer C, Trepka KR, Lam KN, Hernandez LAR, Soto-Perez P, Noecker C, Canigiula P, Ortega EF, Lee J, Ramirez L, Partipilo G, Lawrence HB 3rd, Bottacini F, Draper LA, Ross RP, Coffey A, Shkoporov A, Hill C, Turnbaugh PJ. Zhang S, et al. Among authors: coffey a, hill c, ross rp, shkoporov a. bioRxiv [Preprint]. 2026 Apr 25:2026.04.24.720693. doi: 10.64898/2026.04.24.720693. bioRxiv. 2026. PMID: 42079178 Free PMC article. Preprint.

31

Developing spore-forming gut bacteria as model organisms.

Faherty-McGrath LB, van Sinderen D, Browne HP. Faherty-McGrath LB, et al. Among authors: browne hp, van sinderen d. Trends Microbiol. 2026 Aug;34(8):840-850. doi: 10.1016/j.tim.2026.04.006. Epub 2026 May 1. Trends Microbiol. 2026. PMID: 42069481 Free article. Review.

32

Updated scheme for the classification of bacteriocins in gram-positive bacteria and a comprehensive overview for Lactobacillaceae.

Dillen J, Maeyens LT, Hill C, Lebeer S. Dillen J, et al. Among authors: hill c. Microbiol Mol Biol Rev. 2026 Jun 25;90(2):e0031725. doi: 10.1128/mmbr.00317-25. Epub 2026 Apr 29. Microbiol Mol Biol Rev. 2026. PMID: 42053281 Review.

33

Investigating the role of bacterial raw milk community members in chlorate reduction.

Srinivas M, O'Sullivan O, Cotter PD, van Sinderen D, Kenny JG. Srinivas M, et al. Among authors: van sinderen d. Access Microbiol. 2026 Apr 20;8(4):001088.v3. doi: 10.1099/acmi.0.001088.v3. eCollection 2026. Access Microbiol. 2026. PMID: 42016597 Free PMC article.

34

Not just passengers: Phages as agents of genetic exchange in fecal microbiota transplantation.

Gonzalez Pastor B, Shkoporov AN, Hill C. Gonzalez Pastor B, et al. Among authors: hill c, shkoporov an. Cell Host Microbe. 2026 May 13;34(5):780-789. doi: 10.1016/j.chom.2026.03.017. Epub 2026 Apr 15. Cell Host Microbe. 2026. PMID: 41990750 Free article. Review.

35

Water kefir as a paradigm for multi-omics and genome-scale metabolic modelling in fermented food.

Khan A, Breselge S, O'Mahony AK, O'Sullivan O, Cotter PD, McCarthy SN, Mahony J, Kenny JG. Khan A, et al. Among authors: mahony j. NPJ Biofilms Microbiomes. 2026 Apr 15;12(1):116. doi: 10.1038/s41522-026-00985-x. NPJ Biofilms Microbiomes. 2026. PMID: 41986376 Free PMC article. Review.

36

Raw Milk Cheese Microbiomes: A Paradigm for Interactions of Lactic Acid Bacteria in Food Ecosystems.

Olupot CK, Sheehan O, Kampff Z, McDonnell B, Woods DF, Lugli GA, Ventura M, Reen FJ, Sinderen DV, Mahony J. Olupot CK, et al. Among authors: mahony j. Foods. 2026 Mar 30;15(7):1160. doi: 10.3390/foods15071160. Foods. 2026. PMID: 41976454 Free PMC article.

37

Differential effects of wheel running and treadmill exercise on spatial memory, adult hippocampal neurogenesis and the cerebrospinal fluid proteome in rats.

Caruso MG, Dohm-Hansen S, Donoso F, Rynikova M, Lavelle A, English JA, Nicolas S, O'Leary OF, Nolan YM. Caruso MG, et al. Among authors: lavelle a. Neuropharmacology. 2026 Aug 1;293:110956. doi: 10.1016/j.neuropharm.2026.110956. Epub 2026 Apr 9. Neuropharmacology. 2026. PMID: 41966520

38

Infant gut microbiomes contribute to metabolic states that impact brain function.

Midani FS, Lee DH, Moon Y, Seale M, Horvath TD, Ardis AK, Cantú J, Coles E, Pizzini JD, Zhu D, Dooling SW, Ahern GJ, Ardis CK, Beckford A, Ruggiero NM, Shin J, Joos R, Stanton C, Ross RP, Dai DLY, Mandhane PJ, Petersen C, Turvey SE, Kiely ME, Murray DM, Costa-Mattioli M, Tolias KF, Britton RA, Danhof HA. Midani FS, et al. Among authors: ross rp. bioRxiv [Preprint]. 2026 Mar 10:2026.03.09.710596. doi: 10.64898/2026.03.09.710596. bioRxiv. 2026. PMID: 41959053 Free PMC article. Preprint.

39

Navigating Blastocystis research - challenges in the next-generation sequencing era.

Gentekaki E, Popruk S, Scanlan PD, Stensvold CR. Gentekaki E, et al. Among authors: scanlan pd. Trends Parasitol. 2026 May;42(5):322-326. doi: 10.1016/j.pt.2026.03.006. Epub 2026 Apr 3. Trends Parasitol. 2026. PMID: 41935868 Free article. Review.

40

The Blastocystis-colorectal cancer hypothesis: correlation is not causation.

Kurt Ö, Scanlan PD, Gentekaki E, Robertson LJ, Carmena D, Dogruman-Al F, Tsaousis AD. Kurt Ö, et al. Among authors: scanlan pd. Open Res Eur. 2025 Dec 10;5:379. doi: 10.12688/openreseurope.21693.1. eCollection 2025. Open Res Eur. 2025. PMID: 41908923 Free PMC article.

41

Mining of food metagenomes reveals an unexplored diversity of dsDNA bacteriophages.

Walsh LH, Soni V, Ancla J, Somerville V, Segata N, Joyce S, Sinderen DV, Mahony J, Shkoporov AN, Kenny JG, Cotter PD, O'Sullivan O. Walsh LH, et al. Among authors: mahony j, shkoporov an. NPJ Biofilms Microbiomes. 2026 Mar 27;12(1):104. doi: 10.1038/s41522-026-00941-9. NPJ Biofilms Microbiomes. 2026. PMID: 41896556 Free PMC article.

42

Metabolic pathway analysis reveals hierarchical pentose sugar utilization and metabolic flexibility of Bifidobacterium longum.

Friess L, McAuliffe FM, Cotter PD, Shiver AL, Huang KC, de Jong A, van Sinderen D. Friess L, et al. Among authors: van sinderen d. Gut Microbes. 2026 Dec 31;18(1):2647591. doi: 10.1080/19490976.2026.2647591. Epub 2026 Mar 23. Gut Microbes. 2026. PMID: 41872067 Free PMC article.

43

Establishing and analyzing the Simplified Human Intestinal Microbiota (SIHUMI) as a versatile in vitro gut microbiome model with qPCR-based strain-level tracking.

Ríos Colombo NS, Perez-Ibarreche M, Lanka P, Ross RP, Hill C. Ríos Colombo NS, et al. Among authors: hill c, ross rp. Nat Protoc. 2026 Mar 19. doi: 10.1038/s41596-026-01336-y. Online ahead of print. Nat Protoc. 2026. PMID: 41857249 Review.

44

Intestinal interoceptive dysfunction drives age-associated cognitive decline.

Cox TO, Devason AS, de Araujo A, Mason S, Subramanian M, Salvador AFM, Descamps HC, Kim J, Zhu Y, Litichevskiy L, Jung S, Song WS, Cortés-Martín A, Henderson NT, Huang KP, Nguyen T, Sae-Lee W, Umana IC, Sacta M, Rahman RJ, Wisser S, Nelson JAD, Golynker I, McSween AM, Hohmann EF, Patel S, Bub AL, Soekler C, Blank N, Hoxha K, Boccia L, Wong AC, Bahnsen K, Kim J, Biderman N, Abbasian D, Shoffler C, Petucci C, McAllister FE, Alhadeff AL, Fuccillo MV, Hill C, Jang C, Betley JN, de Lartigue G, Lee VY, Levy M, Thaiss CA. Cox TO, et al. Among authors: hill c. Nature. 2026 Apr;652(8109):442-450. doi: 10.1038/s41586-026-10191-6. Epub 2026 Mar 11. Nature. 2026. PMID: 41813891 Free PMC article.

45

Modelling Fusobacterium lifestyles transitions by integrating transcriptomics and growth data.

Giovannini M, Bosi E, Vieri W, Presta L, Viciani E, Bernabei I, Nannini G, Stares MD, Browne H, Lawley TD, Sauter T, Letellier E, Karta J, Amedei A, Fani R, Fondi M. Giovannini M, et al. Among authors: browne h. Curr Res Microb Sci. 2026 Feb 22;10:100573. doi: 10.1016/j.crmicr.2026.100573. eCollection 2026. Curr Res Microb Sci. 2026. PMID: 41798062 Free PMC article.

46

Functional Evaluation of a Conserved HNH Endonuclease Gene in Lactococcal Skunavirus Genomes.

Yu JH, Hille F, Cambillau C, Biere N, Nauta A, Franz CMAP, Mahony J, van Sinderen D. Yu JH, et al. Among authors: mahony j, van sinderen d. Microb Biotechnol. 2026 Mar;19(3):e70326. doi: 10.1111/1751-7915.70326. Microb Biotechnol. 2026. PMID: 41795595 Free PMC article.

47

Revisiting lactococcal abortive infection-like antiphage systems: diversity, structures, and mechanisms.

Grafakou A, Mosterd C, Jackson SA, de Waal PP, van Peij NNME, Cambillau C, Mahony J, van Sinderen D. Grafakou A, et al. Among authors: mahony j, van sinderen d. FEMS Microbiol Rev. 2026 Jan 2;50:fuag009. doi: 10.1093/femsre/fuag009. FEMS Microbiol Rev. 2026. PMID: 41784611 Free PMC article. Review.

48

Evaluation of the delivery of an anti-Listeria endolysin via CRISPR-Cas9 engineered probiotic Saccharomyces boulardii.

Moreno DS, Carvalho JP, Murray E, Colombo NSR, Lamas A, Cobas AC, Hill C, Azeredo J, Domingues L. Moreno DS, et al. Among authors: hill c. Appl Microbiol Biotechnol. 2026 Feb 26;110(1):81. doi: 10.1007/s00253-026-13749-6. Appl Microbiol Biotechnol. 2026. PMID: 41748831 Free PMC article.

49

Bifidobacterium longum and prebiotic interventions restore early-life high-fat/high-sugar diet-induced alterations in feeding behavior in adult mice.

Cuesta-Marti C, Ponce-España E, Uhlig F, Stoltenborg I, Wasiewska LA, Kareem L, Hedayatpour D, Olavarría-Ramírez L, Rosell-Cardona C, Bastiaanssen TFS, Tofani GSS, Valderrama B, Vlckova K, Dickson SL, Lavelle A, Stanton C, Ross RP, Cryan JF, Dinan TG, Clarke G, O'Mahony SM, Schellekens H. Cuesta-Marti C, et al. Among authors: ross rp, lavelle a. Nat Commun. 2026 Feb 24;17(1):1653. doi: 10.1038/s41467-026-68968-2. Nat Commun. 2026. PMID: 41735265 Free PMC article.

50

A comparative study of human milk oligosaccharides: 6'-sialyllactose enhances gut barrier function and immune homeostasis to alleviate food allergy.

Wu S, Chen H, Zhao J, Jiang S, Stanton C, Ross RP, Chen W, Yang B. Wu S, et al. Among authors: ross rp. Food Funct. 2026 Mar 9;17(5):2252-2266. doi: 10.1039/d5fo04181c. Food Funct. 2026. PMID: 41685406

51

Expanding the Proteomics and Metabolomics Toolkit with Methods for Differential Expression Analysis from Transcriptomics.

Dohm-Hansen S, Caruso MG, Nicolas S, Scaife C, O'Leary OF, Nolan YM, Lavelle A, English JA. Dohm-Hansen S, et al. Among authors: lavelle a. J Proteome Res. 2026 Mar 6;25(3):1253-1264. doi: 10.1021/acs.jproteome.5c00719. Epub 2026 Feb 6. J Proteome Res. 2026. PMID: 41650926

52

Assessment of genome evolution in Bifidobacterium adolescentis indicates genetic adaptation to the human gut.

Selleri E, Tarracchini C, Petraro S, Mancabelli L, Milani C, Turroni F, Shao Y, Browne HP, Lawley TD, van Sinderen D, Ventura M, Lugli GA. Selleri E, et al. Among authors: browne hp, van sinderen d. mSystems. 2026 Mar 24;11(3):e0117325. doi: 10.1128/msystems.01173-25. Epub 2026 Feb 6. mSystems. 2026. PMID: 41649278 Free PMC article.

53

Large-scale capsid-mediated mobilisation of bacterial genomic DNA in the gut microbiome.

Borodovich T, Buttimer C, Wilson JS, Bardy P, Smith M, Hill C, Khokhlova EV, Harte M, Govi B, Fogg PCM, Hill C, Shkoporov AN. Borodovich T, et al. Among authors: hill c, shkoporov an. Nat Commun. 2026 Jan 27;17(1):2046. doi: 10.1038/s41467-026-68726-4. Nat Commun. 2026. PMID: 41593069 Free PMC article.

54

Quality metrics reflecting patient experience of gastrointestinal endoscopy in inflammatory bowel disease: results of national endoscopy dataset analysis.

Jones F, Lavelle A, MacCarthy F, Patchett S, Morcos A, Moloney M, Cullen G, Slattery E, Leyden J, O'Morain C, Egan L, Zammarchi I, Iacucci M, Doherty GA. Jones F, et al. Among authors: lavelle a. J Crohns Colitis. 2026 Jun 7;20(6):jjaf211. doi: 10.1093/ecco-jcc/jjaf211. J Crohns Colitis. 2026. PMID: 41514169 Free PMC article.

55

Genomics of Irish swine-derived Streptococcus suis: population structure, prophages and anti-viral defence mechanisms.

Osei EK, O'Mahony AK, O'Hea R, Moriarty J, O'Doherty Á, Wilson M, Garcia Manzanilla E, Mahony J, Kenny JG. Osei EK, et al. Among authors: mahony j. Microb Genom. 2026 Jan;12(1):001590. doi: 10.1099/mgen.0.001590. Microb Genom. 2026. PMID: 41504765 Free PMC article.

56

The Microbial Composition of Bovine Colostrum as Influenced by Antibiotic Treatment.

Conboy-Stephenson R, Patangia D, Linehan K, Ross RP, Stanton C. Conboy-Stephenson R, et al. Among authors: ross rp. Antibiotics (Basel). 2025 Dec 3;14(12):1217. doi: 10.3390/antibiotics14121217. Antibiotics (Basel). 2025. PMID: 41463720 Free PMC article.

57

Stable co-existence of Citrobacter rodentium with a lytic bacteriophage during in vivo murine infection.

Peters A, Shareefdeen H, Sanchez-Garrido J, Cohen EJ, Denise R, Wong JLC, Beeby M, Hill C, Frankel G. Peters A, et al. Among authors: hill c. mBio. 2026 Feb 11;17(2):e0194425. doi: 10.1128/mbio.01944-25. Epub 2025 Dec 29. mBio. 2026. PMID: 41460104 Free PMC article.

58

Diversity and functional characterization of HNH endonucleases encoded by lactococcal Skunavirus phages.

Yu JH, Cambillau C, Lugli GA, Ventura M, Nauta A, Mahony J, van Sinderen D. Yu JH, et al. Among authors: mahony j, van sinderen d. Microb Genom. 2025 Dec;11(12):001548. doi: 10.1099/mgen.0.001548. Microb Genom. 2025. PMID: 41432540 Free PMC article.

59

Colocalisation of lanthipeptide production with genetic exchange and defence systems across prokaryote genomes.

Hourigan D, Hill C, Ross RP. Hourigan D, et al. Among authors: hill c, ross rp. BMC Genomics. 2025 Dec 18;26(1):1108. doi: 10.1186/s12864-025-12219-z. BMC Genomics. 2025. PMID: 41413859 Free PMC article.

60

Approaches to dissect the vitamin biosynthetic network of the gut microbiota.

Tarracchini C, Bottacini F, Mancabelli L, Lugli GA, Turroni F, van Sinderen D, Ventura M, Milani C. Tarracchini C, et al. Among authors: van sinderen d. Microbiome Res Rep. 2025 Oct 20;4(4):37. doi: 10.20517/mrr.2025.66. eCollection 2025. Microbiome Res Rep. 2025. PMID: 41403886 Free PMC article. Review.

61

Influence of gestational diabetes mellitus on the breast milk microbiota and oligosaccharides and their effects on the infant gut microbiota.

Xu F, Yang B, Cui S, Yang Z, Dai N, Stanton C, Ross RP, Zhao J, Lai J, Chen W, Wang Y. Xu F, et al. Among authors: ross rp. Food Funct. 2026 Jan 12;17(1):513-530. doi: 10.1039/d5fo04527d. Food Funct. 2026. PMID: 41396034

62

NirA is a Cyanide-Tolerant Nitrite Reductase Which Protects Pseudomonas aeruginosa From Self-Poisoning.

Fenn S, Lambert C, Panagiotopulou D, Massey R, Cámara M. Fenn S, et al. Among authors: massey r. Environ Microbiol Rep. 2025 Dec;17(6):e70256. doi: 10.1111/1758-2229.70256. Environ Microbiol Rep. 2025. PMID: 41365772 Free PMC article.

63

Compiling an early life human gut microbiome atlas and identification of key microbial drivers.

Tarracchini C, Longhi G, Gennaioli E, Muscò A, Rizzo SM, Viappiani A, Vitale SG, Mancabelli L, Lugli GA, Angioni S, Turroni F, van Sinderen D, Milani C, Ventura M. Tarracchini C, et al. Among authors: van sinderen d. NPJ Biofilms Microbiomes. 2025 Dec 5;12(1):4. doi: 10.1038/s41522-025-00868-7. NPJ Biofilms Microbiomes. 2025. PMID: 41350579 Free PMC article.

64

Exploring the concept of bacterial memory.

Scanlon K, Shanahan F, Ross RP, Hill C. Scanlon K, et al. Among authors: hill c, ross rp. Nat Microbiol. 2025 Dec;10(12):3049-3058. doi: 10.1038/s41564-025-02185-3. Epub 2025 Nov 14. Nat Microbiol. 2025. PMID: 41238748 Review.

65

"Expanding the Lactococcal Cell Wall Polysaccharide Paradigm: Novel Structures and Metabolic Pathways in the Emerging Dairy Species Pseudolactococcus laudensis and Pseudolactococcus raffinolactis".

Soto-Serrano A, Sadovskaya I, Vinogradov E, Li W, Yu JH, White K, van Sinderen D, Krych L, Deptula P, Mahony J. Soto-Serrano A, et al. Among authors: mahony j, van sinderen d. Microbiologyopen. 2025 Dec;14(6):e70133. doi: 10.1002/mbo3.70133. Microbiologyopen. 2025. PMID: 41212155 Free PMC article.

66

Infant gut microbiome reprogramming following introduction of solid foods (weaning).

Ding M, Ross RP, Dempsey E, Li B, Stanton C. Ding M, et al. Among authors: ross rp. Gut Microbes. 2025 Dec 31;17(1):2571428. doi: 10.1080/19490976.2025.2571428. Epub 2025 Nov 9. Gut Microbes. 2025. PMID: 41208251 Free PMC article. Review.

67

Biodiversity of skunaviruses isolated from dairy fermentation facilities employing undefined mesophilic starter cultures.

White K, Eraclio G, Lugli GA, Ventura M, Biere N, Hille F, Volonté F, Franz CMAP, Cambillau C, Dal Bello F, Mahony J, van Sinderen D. White K, et al. Among authors: mahony j, van sinderen d. Int J Food Microbiol. 2026 Jan 30;446:111509. doi: 10.1016/j.ijfoodmicro.2025.111509. Epub 2025 Nov 3. Int J Food Microbiol. 2026. PMID: 41202435 Free article.

68

A CRISPRi Gene Regulation System for Bifidobacteria.

Friess L, van Sinderen D, Lee C. Friess L, et al. Among authors: van sinderen d. Microb Biotechnol. 2025 Nov;18(11):e70260. doi: 10.1111/1751-7915.70260. Microb Biotechnol. 2025. PMID: 41199512 Free PMC article.

69

Streptocyclin BTW is a novel member of a diverse family of circular bacteriocins in the genus Streptococcus.

Farias FM, Hourigan D, O'Connor PM, Hill C, Ross RP. Farias FM, et al. Among authors: hill c. Mol Nutr Food Res. 2026 Jan;70(1):e70290. doi: 10.1002/mnfr.70290. Epub 2025 Oct 29. Mol Nutr Food Res. 2026. PMID: 41159615 Free PMC article.

70

Microbiome signatures and their role in uveitis: Pathogenesis, diagnostics, and therapeutic perspectives.

Agrawal K, Hong ASY, Cifuentes-González C, Kumar VS, Rojas-Carabali W, Zhang S, Wang Q, de-la-Torre A, Gijs M, Gill T, Rosenbaum JT, Rajagopala SV, Gangaputra S, Conforti A, Ross RP, Yang P, Wong S, Agrawal R. Agrawal K, et al. Among authors: ross rp. Prog Retin Eye Res. 2025 Nov;109:101409. doi: 10.1016/j.preteyeres.2025.101409. Epub 2025 Oct 10. Prog Retin Eye Res. 2025. PMID: 41077176 Review.

71

Placental endocrine function is controlled by maternal gut Bifidobacterium in germ-free mice.

Lopez-Tello J, Kiu R, Schofield Z, Dalby MJ, van Sinderen D, Gall GL, Hall LJ, Sferruzzi-Perri AN. Lopez-Tello J, et al. Among authors: van sinderen d. J Transl Med. 2025 Oct 7;23(1):1031. doi: 10.1186/s12967-025-07198-4. J Transl Med. 2025. PMID: 41053855 Free PMC article.

72

Stress and depression risk in pregnancy associates with altered immune function.

Mealy G, Hempelmann Perez S, Brennan K, Callanan S, Saldova R, Groeger D, Van Sinderen D, Cotter PD, Doyle SL, McAuliffe FM. Mealy G, et al. Among authors: van sinderen d. World J Biol Psychiatry. 2025 Oct;26(8):346-358. doi: 10.1080/15622975.2025.2530000. Epub 2025 Jul 26. World J Biol Psychiatry. 2025. PMID: 41021330 Free article.

73

Predicted Structures of Ceduovirus Adhesion Devices Highlight Unique Architectures Reminiscent of Bacterial Secretion System VI.

Goulet A, Mahony J, van Sinderen D, Cambillau C. Goulet A, et al. Among authors: mahony j, van sinderen d. Viruses. 2025 Sep 18;17(9):1261. doi: 10.3390/v17091261. Viruses. 2025. PMID: 41012688 Free PMC article.

74

Expression of mecA increases daptomycin tolerance in Staphylococcus aureus.

Ledger EVK, Recker M, Massey RC. Ledger EVK, et al. Among authors: massey rc. mBio. 2025 Nov 12;16(11):e0225025. doi: 10.1128/mbio.02250-25. Epub 2025 Sep 22. mBio. 2025. PMID: 40980895 Free PMC article.

75

Quorum Sensing via Autoinducer-2 Promotes Colonisation and Host Adaptation in B. bifidum PRL2010.

Turroni F, Tarracchini C, Lugli GA, Vergna LM, Alessandri G, Rizzo SM, Bianchi MG, Coenye T, Selleri E, Bussolati O, van Sinderen D, Ventura M. Turroni F, et al. Among authors: van sinderen d. Microb Biotechnol. 2025 Sep;18(9):e70231. doi: 10.1111/1751-7915.70231. Microb Biotechnol. 2025. PMID: 40955070 Free PMC article.

76

The cell surface-associated rhamnose-glucose polysaccharide represents the receptor of Streptococcus thermophilus bacteriophage P738.

Kampff Z, Sadovskaya I, Vinogradov E, McDonnell B, van Sinderen D, Mahony J. Kampff Z, et al. Among authors: mahony j, van sinderen d. Appl Environ Microbiol. 2025 Oct 22;91(10):e0123825. doi: 10.1128/aem.01238-25. Epub 2025 Sep 12. Appl Environ Microbiol. 2025. PMID: 40938078 Free PMC article.

77

Nisin-like biosynthetic gene clusters are widely distributed across microbiomes.

Hourigan D, Field D, Murray E, Sugrue I, O'Connor PM, Hill C, Ross RP. Hourigan D, et al. Among authors: hill c, ross rp. mBio. 2025 Oct 8;16(10):e0154525. doi: 10.1128/mbio.01545-25. Epub 2025 Sep 10. mBio. 2025. PMID: 40928248 Free PMC article.

78

Lactococcal mobile genetic elements harbour a diverse phage defensome rich in restriction-modification systems.

McDonnell B, Kelleher P, Fomenkov A, Charneco GO, Coughlan K, Quénée P, Kulakauskas S, Cambillau C, Anton BP, de Waal PP, van Peij NNME, Bottacini F, Mahony J, Roberts RJ, van Sinderen D. McDonnell B, et al. Among authors: mahony j, van sinderen d. Nucleic Acids Res. 2025 Sep 5;53(17):gkaf854. doi: 10.1093/nar/gkaf854. Nucleic Acids Res. 2025. PMID: 40923768 Free PMC article.

79

Phosphate sensing by PhoPR regulates the cytotoxicity of Staphylococcus aureus.

Palk N, Brignoli T, Boura M, Massey RC. Palk N, et al. Among authors: massey rc. Microbiology (Reading). 2025 Sep;171(9):001606. doi: 10.1099/mic.0.001606. Microbiology (Reading). 2025. PMID: 40892556 Free PMC article.

80

Microbial Sharing Between Siblings Supports Metabolic Functions Protective Against Allergy.

Devotta H, Lavelle A, Korpela K, Hurley S, Shannon E, Lunjani N, Ambikan A, Neogi U, Venter C, Walter J, Hourihane J, O'Mahony L. Devotta H, et al. Among authors: lavelle a. Allergy. 2025 Oct;80(10):2934-2937. doi: 10.1111/all.70033. Epub 2025 Aug 29. Allergy. 2025. PMID: 40879391 Free PMC article. No abstract available.

81

Understanding Exopolysaccharides from Lactic Acid Bacteria: Synthesis, Functions, and Applications.

Li H, Jin Y, Li H, Zhao J, Stanton C, Ross RP, Chen W, Yang B. Li H, et al. Among authors: ross rp. J Agric Food Chem. 2025 Sep 10;73(36):22110-22132. doi: 10.1021/acs.jafc.5c04613. Epub 2025 Aug 29. J Agric Food Chem. 2025. PMID: 40878626 Review.

82

Distinct shifts in bacteriophage diversity and abundance during various stages of Gouda-type cheese production.

Yu J-H, Lugli GA, Ventura M, van der Vaart R, Nauta A, Mahony J, van Sinderen D. Yu J-H, et al. Among authors: mahony j, van sinderen d. Appl Environ Microbiol. 2025 Sep 17;91(9):e0065125. doi: 10.1128/aem.00651-25. Epub 2025 Aug 7. Appl Environ Microbiol. 2025. PMID: 40772758 Free PMC article.

83

Breastfeeding and the milk resistome shape the establishment and transmission of antibiotic resistance genes in the infant gut microbiome.

Pan Z, Walsh CJ, Feehily C, Nori SRC, McAuliffe FM, Cotter PD, MacSharry J, van Sinderen D. Pan Z, et al. Among authors: van sinderen d. Gut Microbes. 2025 Dec;17(1):2541033. doi: 10.1080/19490976.2025.2541033. Epub 2025 Aug 4. Gut Microbes. 2025. PMID: 40755225 Free PMC article.

84

Late-onset sepsis treatment in very preterm infants alters longitudinal microbiome trajectory with lower abundance of Bifidobacterium despite probiotic supplementation.

Healy DB, Wang S, Patangia D, Grimaud G, Ross RP, Stanton C, Dempsey EM. Healy DB, et al. Among authors: ross rp. Gut Microbes. 2025 Dec;17(1):2523808. doi: 10.1080/19490976.2025.2523808. Epub 2025 Jul 6. Gut Microbes. 2025. PMID: 40618372 Free PMC article.

85

Adaptation of bacterial starter cultures from dairy to plant-based substrates: challenges and opportunities.

Lavelle K, Mahony J, van Sinderen D. Lavelle K, et al. Among authors: mahony j, van sinderen d. Int J Food Microbiol. 2025 Oct 2;441:111304. doi: 10.1016/j.ijfoodmicro.2025.111304. Epub 2025 Jun 6. Int J Food Microbiol. 2025. PMID: 40494068 Free article. Review.

86

Gut and oral microbial profile associations to oral cancer.

Nayyar J, Bedu-Ferrari C, Patangia D, Hurley E, Feeley L, Ross RP, Stanton C, Brady P. Nayyar J, et al. Among authors: ross rp. J Dent. 2025 Sep;160:105848. doi: 10.1016/j.jdent.2025.105848. Epub 2025 May 31. J Dent. 2025. PMID: 40456384

87

Adaptations in gut Bacteroidales facilitate stable co-existence with their lytic bacteriophages.

Cortés-Martín A, Buttimer C, Maier JL, Tobin CA, Draper LA, Ross RP, Kleiner M, Hill C, Shkoporov AN. Cortés-Martín A, et al. Among authors: hill c, ross rp, shkoporov an. Gut Microbes. 2025 Dec;17(1):2507775. doi: 10.1080/19490976.2025.2507775. Epub 2025 May 23. Gut Microbes. 2025. PMID: 40407098 Free PMC article.

88

Bifidobacterium inhibits the progression of colorectal tumorigenesis in mice through fatty acid isomerization and gut microbiota modulation.

Chen Y, Fang H, Chen H, Liu X, Zhao J, Stanton C, Ross RP, Chen W, Yang B. Chen Y, et al. Among authors: ross rp. Gut Microbes. 2025 Dec;17(1):2464945. doi: 10.1080/19490976.2025.2464945. Epub 2025 Feb 9. Gut Microbes. 2025. PMID: 39924893 Free PMC article.

89

Synergistic and off-target effects of bacteriocins in a simplified human intestinal microbiome: implications for Clostridioides difficile infection control.

Ríos Colombo NS, Paul Ross R, Hill C. Ríos Colombo NS, et al. Among authors: hill c. Gut Microbes. 2025 Dec;17(1):2451081. doi: 10.1080/19490976.2025.2451081. Epub 2025 Jan 16. Gut Microbes. 2025. PMID: 39817466 Free PMC article.

90

Host-microbe multi-omics and succinotype profiling have prognostic value for future relapse in patients with inflammatory bowel disease.

O'Sullivan J, Patel S, Leventhal GE, Fitzgerald RS, Laserna-Mendieta EJ, Huseyin CE, Konstantinidou N, Rutherford E, Lavelle A, Dabbagh K, DeSantis TZ, Shanahan F, Temko A, Iwai S, Claesson MJ. O'Sullivan J, et al. Among authors: lavelle a. Gut Microbes. 2025 Dec;17(1):2450207. doi: 10.1080/19490976.2025.2450207. Epub 2025 Jan 15. Gut Microbes. 2025. PMID: 39812341 Free PMC article.

91

Gut Microbiome in Children with Congenital Heart Disease After Cardiopulmonary Bypass Surgery (GuMiBear Study).

Koc F, Magner C, Murphy K, Kelleher ST, Tan MH, O'Toole M, Jenkins D, Boyle J, Lavelle M, Maguire N, Ross PR, Stanton C, McMahon CJ. Koc F, et al. Among authors: ross pr. Pediatr Cardiol. 2025 Oct;46(7):1868-1878. doi: 10.1007/s00246-024-03634-2. Epub 2024 Aug 22. Pediatr Cardiol. 2025. PMID: 39174731 Free PMC article.

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