Corrigendum: Gut microbiota features in young children with autism spectrum disorders (Frontiers in Microbiology (2018) 9 (3146) DOI: 10.3389/fmicb.2018.03146);Gut microbiota features in young children with autism spectrum disorders

Frontiers in Microbiology

Volumn 9, Issue , 2018, Pages

  Coretti, Lorena ^a,b   Paparo, Lorella ^a   Riccio, Maria Pia ^a   Amato, Felice ^a   Cuomo, Mariella ^a   Natale, Alessandro ^a   Borrelli, Luca ^a   Corrado, Giusi ^a   Comegna, Marika ^a   Buommino, Elisabetta ^a   Castaldo, Giuseppe ^a   Bravaccio, Carmela ^a   Chiariotti, Lorenzo ^a,c   Canani, Roberto Berni ^a   Lembo, Francesca ^a  

^a UNIVERSITY OF NAPLES FEDERICO II   (Italy)

^b UNIVERSITY OF MALTA   (Malta)

^c Istituto di Endocrinologia Ed Oncologia Sperimentale   (Italy)

Author keywords

ASD; Bifidobacterium longum; butyrate; Faecalibacterium prausnitzii; gut microbiome; propionate; short chain fatty acids

Indexed keywords

SHORT CHAIN FATTY ACID;

ACTINOBACTERIA; ARTICLE; AUTISM; BACTERIAL COLONIZATION; BACTEROIDETES; BIFIDOBACTERIUM LONGUM; CHILD; CHILDHOOD AUTISM RATING SCALE; CLINICAL ARTICLE; DROPLET DIGITAL POLYMERASE CHAIN REACTION; ELECTROENCEPHALOGRAPHY; FAECALIBACTERIUM PRAUSNITZII; FEMALE; HUMAN; INTESTINE FLORA; MALE; NUCLEAR MAGNETIC RESONANCE IMAGING; POPULATION ABUNDANCE; PROTEOBACTERIA;

EID: 85059415591     PISSN: None     EISSN: 1664302X     Source Type: Journal    
DOI: 10.3389/fmicb.2019.00920     Document Type: Erratum

References (72)

1. Adams, J. B., Johansen, L. J., Powell, L. D., Quig, D., and Rubin, R. A. (2011). Gastrointestinal flora and gastrointestinal status in children with autism-comparisons to typical children and correlation with autism severity. BMC Gastroenterol. 11, 22. doi: 10.1186/1471-230X-11-22
2. Allard, G., Ryan, F. J., Jeffery, I. B., and Claesson, M. J. (2015). SPINGO: A rapid species-classifier for microbial amplicon sequences. BMC Bioinformatics 16, 324. doi: 10.1186/s12859-015-0747-1
3. American Psychiatric Association. (2013). Cautionary Statement for Forensic Use of DSM-5. In Diagnostic and Statistical Manual of Mental Disorders, 5th Edn. Washington, DC: American Psychiatric Association Publishing, 280. doi: 10. 1176/appi.books.9780890425596.744053
4. Bercik, P., Park, A. J., Sinclair, D., Khoshdel, A., Lu, J., Huang, X., et al. (2011). The anxiolytic effect of Bifidobacterium longum NCC3001 involves vagal pathways for gut-brain communication. Neurogastroenterol. Motil. 23, 1132-1139. doi: 10.1111/j.1365-2982.2011.01796.x
5. Berni Canani, R., Costanzo, M. D., Leone, L., Pedata, M., Meli, R., and Calignano, A. (2011). Potential beneficial effects of butyrate in intestinal and extraintestinal diseases. World J. Gastroenterol. 17, 1519-1528. doi: 10.3748/ wjg.v17.i12
6. Borrelli, L., Coretti, L., Dipineto, L., Bovera, F., Menna, F., Chiariotti, L., et al. (2017). Insect-based diet, a promising nutritional source, modulates gut microbiota composition and SCFAs production in laying hens. Sci. Rep. 7, 16269. doi: 10.1038/s41598-017-16560-6
7. Bourassa, M. W., Alim, I., Bultman, S. J., and Ratan, R. R. (2016). Butyrate, neuroepigenetics and the gut microbiome: Can a high fiber diet improve brain health- Neurosci. Lett. 625, 56-63. doi: 10.1016/j.neulet.2016. 02.009
8. Caporaso, J. G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F. D., Costello, E. K., et al. (2010). QIIME allows analysis of high-throughput community sequencing data. Nat. Methods 7, 335-336. doi: 10.1038/nmeth. f.303
9. Chen, Y., Yang, F., Lu, H., Wang, B., Chen, Y., Lei, D., et al. (2011). Characterization of fecal microbial communities in patients with liver cirrhosis. Hepatology 54, 562-572. doi: 10.1002/hep.24423
10. Core Team, R. (2015). R: A Language and Environment for Statistical Computing. Vienna: R Found. Stat. Comput.
11. Coretti, L., Cristiano, C., Florio, E., Scala, G., Lama, A., Keller, S., et al. (2017). Sexrelated alterations of gut microbiota composition in the BTBR mouse model of autism spectrum disorder. Sci. Rep. 7, 45356. doi: 10.1038/srep45356
12. De Angelis, M., Piccolo, M., Vannini, L., Siragusa, S., De Giacomo, A., Serrazzanetti, D. I., et al. (2013). Fecal microbiota and metabolome of children with autism and pervasive developmental disorder not otherwise specified. PLoS One 8, e76993. doi: 10.1371/journal.pone.0076993
13. de Magistris, L., Familiari, V., Pascotto, A., Sapone, A., Frolli, A., Iardino, P., et al. (2010). Alterations of the intestinal barrier in patients with autism spectrum disorders and in their first-degree relatives. J. Pediatr. Gastroenterol. Nutr. 51, 418-424. doi: 10.1097/MPG.0b013e3181dcc4a5
14. de Theije, C. G. M., Wopereis, H., Ramadan, M., van Eijndthoven, T., Lambert, J., Knol, J., et al. (2014). Altered gut microbiota and activity in a murine model of autism spectrum disorders. Brain Behav. Immun. 37, 197-206. doi: 10.1016/j. bbi.2013.12.005
15. Depino, A. M. (2013). Peripheral and central inflammation in autism spectrum disorders. Mol. Cell. Neurosci. 53, 69-76. doi: 10.1016/j.mcn.2012.10.003
16. DeSantis, T. Z., Hugenholtz, P., Larsen, N., Rojas, M., Brodie, E. L., Keller, K., et al. (2006). Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl. Environ. Microbiol. 72, 5069-5072. doi: 10.1128/AEM.03006-05
17. Dinan, T. G., and Cryan, J. F. (2017). The microbiome-gut-brain axis in health and disease. Gastroenterol. Clin. North Am. 46, 77-89. doi: 10.1016/j.gtc.2016. 09.007
18. Duncan, S. H., Louis, P., and Flint, H. J. (2004). Lactate-utilizing bacteria, isolated from human feces, that produce butyrate as a major fermentation product. Appl. Environ. Microbiol. 70, 5810-5817.
19. Emanuele, E., Orsi, P., Boso, M., Broglia, D., Brondino, N., Barale, F., et al. (2010). Low-grade endotoxemia in patients with severe autism. Neurosci. Lett. 471, 162-165. doi: 10.1016/j.neulet.2010.01.033
20. Estes, M. L., and McAllister, A. K. (2015). Immune mediators in the brain and peripheral tissues in autism spectrum disorder. Nat. Rev. Neurosci. 16, 469-486. doi: 10.1038/nrn3978
21. Faust, K., and Raes, J. (2016). CoNet app: Inference of biological association networks using cytoscape. F1000Res. 5, 519.
22. Finegold, S. M., Dowd, S. E., Gontcharova, V., Liu, C., Henley, K. E., Wolcott, R. D., et al. (2010). Pyrosequencing study of fecal microflora of autistic and control children. Anaerobe 16, 444-453. doi: 10.1016/j.anaerobe.2010.06.008
23. Frye, R. E., Rose, S., Chacko, J., Wynne, R., Bennuri, S. C., Slattery, J. C., et al. (2016). Modulation of mitochondrial function by the microbiome metabolite propionic acid in autism and control cell lines. Transl. Psychiatry 6, e927. doi: 10.1038/tp.2016.189
24. Gagliano, H., Delgado-Morales, R., Sanz-Garcia, A., and Armario, A. (2014). High doses of the histone deacetylase inhibitor sodium butyrate trigger a stresslike response. Neuropharmacology 79, 75-82. doi: 10.1016/j.neuropharm.2013. 10.031
25. Griffiths, R. (2006). Griffiths Mental Developmental Scales Extended Revised Manual. Firenze: Giunti Organizzazioni Speciali.
26. Hallmayer, J., Cleveland, S., Torres, A., Phillips, J., Cohen, B., Torigoe, T., et al. (2011). Genetic heritability and shared environmental factors among twin pairs with autism. Arch. Gen. Psychiatry 68, 1095-1102. doi: 10.1001/ archgenpsychiatry.2011.76
27. Hospodsky, D., Qian, J., Nazaroff, W. W., Yamamoto, N., Bibby, K., Rismani-Yazdi, H., et al. (2012). Human occupancy as a source of indoor airborne bacteria. PLoS One 7, e34867. doi: 10.1371/journal.pone.0034867
28. Hsiao, E. Y., McBride, S. W., Hsien, S., Sharon, G., Hyde, E. R., McCue, T., et al. (2013). Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders. Cell 155, 1451-1463. doi: 10. 1016/j.cell.2013.11.024
29. Jyonouchi, H., Sun, S., and Le, H. (2001). Proinflammatory and regulatory cytokine production associated with innate and adaptive immune responses in children with autism spectrum disorders and developmental regression. J. Neuroimmunol. 120, 170-179. doi: 10.1016/S0165-5728(01)00 421-0
30. Kanehisa, M., Sato, Y., Kawashima, M., Furumichi, M., and Tanabe, M. (2016). KEGG as a reference resource for gene and protein annotation. Nucleic Acids Res. 44, D457-D462. doi: 10.1093/nar/gkv1070
31. Kang, D. W., Adams, J. B., Gregory, A. C., Borody, T., Chittick, L., Fasano, A., et al. (2017). Microbiota transfer therapy alters gut ecosystem and improves gastrointestinal and autism symptoms: An open-label study. Microbiome 5, 10. doi: 10.1186/s40168-016-0225-7
32. Kang, D. W., Park, J. G., Ilhan, Z. E., Wallstrom, G., LaBaer, J., Adams, J. B., et al. (2013). Reduced incidence of prevotella and other fermenters in intestinal microflora of autistic children. PLoS One 8, e68322. doi: 10.1371/journal.pone. 0068322
33. Kats, D., Payne, L., Parlier, M., and Piven, J. (2013). Prevalence of selected clinical problems in older adults with autism and intellectual disability. J. Neurodev. Disord. 5, 1-27. doi: 10.1186/1866-1955-5-27
34. Kim, M., Qie, Y., Park, J., and Kim, C. H. (2016). Gut microbial metabolites fuel host antibody responses. Cell Host Microbe 20, 202-214. doi: 10.1016/j.chom. 2016.07.001
35. Kratsman, N., Getselter, D., and Elliott, E. (2016). Sodium butyrate attenuates social behavior deficits and modifies the transcription of inhibitory/excitatory genes in the frontal cortex of an autism model. Neuropharmacology 102, 136-145. doi: 10.1016/j.neuropharm.2015.11.003
36. Langille, M., Zaneveld, J., Caporaso, J. G., McDonald, D., Knights, D., Reyes, J., et al. (2013). Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences. Nat. Biotechnol. 31, 814-821. doi: 10.1038/nbt. 2676
37. Li, Q., Han, Y., Dy, A. B. C., and Hagerman, R. J. (2017). The gut microbiota and autism spectrum disorders. Front. Cell. Neurosci. 11, 120. doi: 10.3389/fncel. 2017.00120
38. Lord, C., Rutter, M., DiLavore, P., Risi, S., and Gotham, K. (2012). Autism Diagnostic Observation Schedule, (ADOS-2). Los Angeles, CA: Western Psychological Services.
39. MacFabe, D. F., Cain, D. P., Rodriguez-Capote, K., Franklin, A. E., Hoffman, J. E., Boon, F., et al. (2007). Neurobiological effects of intraventricular propionic acid in rats: Possible role of short chain fatty acids on the pathogenesis and characteristics of autism spectrum disorders. Behav. Brain Res. 176, 149-169. doi: 10.1016/j.bbr.2006.07.025
40. Macia, L., Tan, J., Vieira, A. T., Leach, K., Stanley, D., Luong, S., et al. (2015). Metabolite-sensing receptors GPR43 and GPR109A facilitate dietary fibre-induced guthomeostasis through regulation of the inflammasome. Nat. Commun. 6, 6734. doi: 10.1038/ncomms7734
41. Messaoudi, M., Violle, N., Bisson, J. F., Desor, D., Javelot, H., and Rougeot, C. (2011). Beneficial psychological effects of a probiotic formulation (Lactobacillus helveticus R0052 and Bifidobacterium longum R0175) in healthy human volunteers. Gut Microbes 2, 256-261. doi: 10.4161/gmic.2.4. 16108
42. Miquel, S., Martin, R., Bridonneau, C., Robert, V., Sokol, H., Bermúdez-Humarán, L. G., et al. (2014). Ecology and metabolism of the beneficial intestinal commensal bacterium Faecalibacterium prausnitzii. Gut Microbes 5, 146-151. doi: 10.4161/gmic.27651
43. Onore, C. E., Careaga, M., Babineau, B. A., Schwartzer, J. J., Berman, R. F., and Ashwood, P. (2013). Inflammatory macrophage phenotype in BTBR TCtf/J mice. Front. Neurosci. 7, 158. doi: 10.3389/fnins.2013.00158
44. Parracho, H. M., Bingham, M. O., Gibson, G. R., and McCartney, A. L. (2005). Differences between the gut microflora of children with autistic spectrum disorders and that of healthy children. J. Med. Microbiol. 54, 987-991. doi: 10.1099/jmm.0.46101-0
45. Patterson, P. H. (2011). Maternal infection and immune involvement in autism. Trends Mol. Med. 17, 389-394. doi: 10.1016/j.molmed.2011. 03.001
46. Rajilić-Stojanović, M., and de Vos, W. M. (2014). The first 1000 cultured species of the human gastrointestinal microbiota. FEMS Microbiol. Rev. 38, 996-1047. doi: 10.1111/1574-6976.12075
47. Raveh-Sadka, T., Thomas, B. C., Singh, A., Firek, B., Brooks, B., Castelle, C. J., et al. (2015). Gut bacteria are rarely shared by co-hospitalized premature infants, regardless of necrotizing enterocolitis development. Elife 4, e05477. doi: 10. 7554/eLife.05477
48. Russo, R., De Caro, C., Avagliano, C., Cristiano, C., La Rana, G., Mattace Raso, G., et al. (2016). Sodium butyrate and its synthetic amide derivative modulate nociceptive behaviors in mice. Pharmacol. Res. 103, 279-291. doi: 10.1016/j. phrs.2015.11.026
49. Rutter, M., Le Couteur, A., and Lord, C. (2005). Autism Diagnostic Interview -Revised. Firenze: Giunti Organizzazioni Speciali.
50. Sarkar, A., Lehto, S. M., Harty, S., Dinan, T. G., Cryan, J. F., and Burnet, P. W. J. (2016). Psychobiotics and the manipulation of bacteria-gut-brain signals. Trends Neurosci. 39, 763-781. doi: 10.1016/j.tins.2016.09.002
51. Schmieder, R., and Edwards, R. (2011). Quality control and preprocessing of metagenomic datasets. Bioinformatics 27, 863-864. doi: 10.1093/ bioinformatics/btr026
52. Schopler, E., Reichler, R. J., and Renner, B. R. (1988). Childhood Autism Rating Scale (CARS). Los Angeles, CA: West. Psychol. Serv, 59804.
53. Schwab, C., Berry, D., Rauch, I., Rennisch, I., Ramesmayer, J., Hainzl, E., et al. (2014). Longitudinal study of murine microbiota activity and interactions with the host during acute inflammation and recovery. ISME J. 8, 1101-1114. doi: 10.1038/ismej.2013.223
54. Segata, N., Izard, J., Waldron, L., Gevers, D., Miropolsky, L., Garrett, W. S., et al. (2011). Metagenomic biomarker discovery and explanation. Genome Biol. 12, R60. doi: 10.1186/gb-2011-12-6-r60
55. Shannon, P., Markiel, A., Ozier, O., Baliga, N. S., Wang, J. T., Ramage, D., et al. (2003). Cytoscape: A software environment for integrated models of biomolecular interaction networks. Genome Res. 13, 2498-2504.
56. Song, Y., Liu, C., and Finegold, S. M. (2004). Real-time PCR quantitation of clostridia in feces of autistic children. Appl. Environ. Microbiol. 70, 6459-6465. doi: 10.1128/AEM.70.11.6459-6465.2004
57. Sparrow, S. E., Balla, D. A., and Cicchetti, D. V. (2003). Vineland Adaptive Behavior Scales. Intervista - Forma Completa. Firenze: Giunti Organizzazioni Speciali.
58. Stilling, R. M., van de Wouw, M., Clarke, G., Stanton, C., Dinan, T. G., and Cryan, J. F. (2016). The neuropharmacology of butyrate: The bread and butter of the microbiota-gut-brain axis- Neurochem. Int. 99, 110-132. doi: 10.1016/j.neuint. 2016.06.011
59. Strati, F., Cavalieri, D., Albanese, D., De Felice, C., Donati, C., Hayek, J., et al. (2017). New evidences on the altered gut microbiota in autism spectrum disorders. Microbiome 5, 24. doi: 10.1186/s40168-017-0242-1
60. Takuma, K., Hara, Y., Kataoka, S., Kawanai, T., Maeda, Y., Watanabe, R., et al. (2014). Chronic treatment with valproic acid or sodium butyrate attenuates novel object recognition deficits and hippocampal dendritic spine loss in a mouse model of autism. Pharmacol. Biochem. Behav. 126, 43-49. doi: 10.1016/ j.pbb.2014.08.013
61. Thomas, R. H., Meeking, M. M., Mepham, J. R., Tichenoff, L., Possmayer, F., Liu, S., et al. (2012). The enteric bacterial metabolite propionic acid alters brain and plasma phospholipid molecular species: Further development of a rodent model of autism spectrum disorders. J. Neuroinflammation 9, 153. doi: 10.1186/1742-2094-9-153
62. Tomova, A., Husarova, V., Lakatosova, S., Bakos, J., Vlkova, B., Babinska, K., et al. (2015). Gastrointestinal microbiota in children with autism in Slovakia. Physiol. Behav. 138, 179-187. doi: 10.1016/j.physbeh.2014.10.033
63. Walker, L., SCaplan, A., and Rasquin, A. (2006). Rome III Diagnostic Questionnaire for the Pediatric Functional GI Disorders. Rome: The Functional Gastrointestinal Disorders, 961-990.
64. Wang, L., Christophersen, C. T., Sorich, M. J., Gerber, J. P., Angley, M. T., and Conlon, M. A. (2011). Low relative abundances of the mucolytic bacterium Akkermansia muciniphila and Bifidobacterium spp. in feces of children with autism. Appl. Environ. Microbiol. 77, 6718-6721. doi: 10.1128/AEM.05212-11
65. Wang, L., Christophersen, C. T., Sorich, M. J., Gerber, J. P., Angley, M. T., and Conlon, M. A. (2012). Elevated fecal short chain fatty acid and ammonia concentrations in children with autism spectrum disorder. Dig. Dis. Sci. 57, 2096-2102. doi: 10.1007/s10620-012-2167-7
66. Wang, L., Christophersen, C. T., Sorich, M. J., Gerber, J. P., Angley, M. T., and Conlon, M. A. (2013). Increased abundance of Sutterella spp. and Ruminococcus torques in feces of children with autism spectrum disorder. Mol. Autism 4, 42. doi: 10.1186/2040-2392-4-42
67. White, J. R., Nagarajan, N., and Pop, M. (2009). Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PLoS Comput. Biol. 5, e1000352. doi: 10.1371/journal.pcbi.1000352
68. Williams, B. L., Hornig, M., Buie, T., Bauman, M. L., Cho Paik, M., Wick, I., et al. (2011). Impaired carbohydrate digestion and transport and mucosal dysbiosis in the intestines of children with autism and gastrointestinal disturbances. PLoS One 6, e24585. doi: 10.1371/journal.pone.0024585
69. Zhang, J., Kobert, K., Flouri, T., and Stamatakis, A. (2014). PEAR: A fast and accurate illumina paired-end reAd mergeR. Bioinformatics 30, 614-620. doi: 10.1093/bioinformatics/btt593
70. Zhang, M., Ma, W., Zhang, J., He, Y., and Wang, J. (2018). Analysis of gut microbiota profiles and microbe-disease associations in children with autism spectrum disorders in China. Sci. Rep. 18:13981. doi: 10.1038/s41598-018-32219-2
71. Zhao, N., Chen, J., Carroll, I. M., Ringel-Kulka, T., Epstein, M. P., Zhou, H., et al. (2015). Testing in microbiome-profiling studies with MiRKAT, the microbiome regression-based kernel association test. Am. J. Hum. Genet. 96, 797-807.
72. Zheng, P., Zeng, B., Zhou, C., Liu, M., Fang, Z., Xu, X., et al. (2016). Gut microbiome remodeling induces depressive-like behaviors through a pathway mediated by the host's metabolism. Mol. Psychiatry 21, 786-796. doi: 10.1038/ mp.2016.44