Microbial effects of livestock manure fertilization on freshwater aquaculture ponds rearing tilapia (Oreochromis shiranus) and North African catfish (Clarias gariepinus)

MicrobiologyOpen
Jeremiah J MinichRob Knight

Abstract

The majority of seafood is farmed, with most finfish coming from freshwater ponds. Ponds are often fertilized to promote microbial productivity as a natural feed source to fish. To understand if pond fertilization with livestock manure induces a probiotic or prebiotic effect, we communally reared tilapia (Oreochromis shiranus), and North African catfish (Clarias gariepinus), for 4 weeks under seven manure treatments including layer chicken, broiler chicken, guinea fowl, quail, pig, cow, vs. commercial feed to evaluate microbial community dynamics of the manure, pond water, and fish feces using 16S and 18S rRNA marker genes along with metagenome sequencing. Catfish growth, but not tilapia, was positively associated with plankton abundance (p = 0.0006, R2  = 0.4887) and greatest in ponds fertilized with quail manure (ANOVA, p < 0.05). Manure was unique and influenced the 16S microbiome in pond water, tilapia gut, and catfish gut and 18S community in pond water and catfish guts (PERMANOVA, p = 0.001). On average, 18.5%, 18.6%, and 45.3% of manure bacteria sOTUs, (sub-operational taxonomic units), were present in the water column, catfish feces, and tilapia feces which comprised 3.7%, 12.8%, and 10.9% of the total microbial richnes...Continue Reading

References

Aug 1, 1988·Antimicrobial Agents and Chemotherapy·A A DivoF J Bia
Feb 21, 2004·FEMS Microbiology Reviews·Amy V Jennison, Naresh K Verma
Dec 8, 2005·Applied and Environmental Microbiology·Catherine Lozupone, Rob Knight
Feb 24, 2006·Veterinary Microbiology·José Luis BalcázarJosé Luis Múzquiz
Nov 10, 2006·The New England Journal of Medicine·Miriam K LauferChristopher V Plowe
Jun 21, 2008·Environment International·Amir SapkotaRobert Lawrence
Oct 9, 2008·Applied Microbiology and Biotechnology·Surajit DasChris Burke
Apr 13, 2010·Nature Methods·J Gregory CaporasoRob Knight
Jun 11, 2010·Proceedings of the National Academy of Sciences of the United States of America·J Gregory CaporasoRob Knight
Sep 2, 2010·Nucleic Acids Research·Mina RhoYuzhen Ye
Sep 2, 2010·Microbiology and Molecular Biology Reviews : MMBR·Julian Davies, Dorothy Davies
Feb 15, 2011·Food Microbiology·Simon M Cutting
May 7, 2011·Current Opinion in Microbiology·Holger HeuerKornelia Smalla
May 20, 2011·Nucleic Acids Research·Robert D FinnSean R Eddy
Mar 23, 2012·BMC Infectious Diseases·Mwai H MakokaMina C Hosseinipour
Feb 13, 2013·Proceedings of the National Academy of Sciences of the United States of America·Yong-Guan ZhuJames M Tiedje
May 29, 2013·Environmental Microbiology·Felipe C CabelloAlejandro H Buschmann
Nov 28, 2013·GigaScience·Yoshiki Vázquez-BaezaRob Knight
Mar 4, 2014·Genome Biology·Derrick E Wood, Steven L Salzberg
Apr 4, 2014·Bioinformatics·Anthony M BolgerBjoern Usadel
May 6, 2014·Fish & Shellfish Immunology·Carlo C Lazado, Christopher Marlowe A Caipang
May 23, 2014·Nature·Kevin J ForsbergGautam Dantas
Apr 21, 2016·MBio·Sophie ThannerFiona Walsh
Dec 21, 2016·Annals of the New York Academy of Sciences·Jian-Qiang SuYong-Guan Zhu
Feb 9, 2017·Journal of Applied Microbiology·A M TarneckiC R Arias
Nov 2, 2017·Nature·Luke R ThompsonUNKNOWN Earth Microbiome Project Consortium

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Datasets Mentioned

BETA
LBML00000000.1
ERP106745

Methods Mentioned

BETA
profiler

Software Mentioned

Qiita
QIIME
EMPeror
HMMer
FragGeneScan
FASTQC
Trimmomatic
bowtie2
PERMANOVA

Related Concepts