scholarly journals Pretreatment Method for DNA Barcoding to Analyze Gut Contents of Rotifers

2020 ◽  
Vol 10 (3) ◽  
pp. 1064 ◽  
Author(s):  
Hye-Ji Oh ◽  
Paul Henning Krogh ◽  
Hyun-Gi Jeong ◽  
Gea-Jae Joo ◽  
Ihn-Sil Kwak ◽  
...  
Keyword(s):  
Dna Barcoding ◽  
Dna Analysis ◽  
Extracellular Dna ◽  
Food Sources ◽  
Gut Contents ◽  
Gut Content ◽  
Reservoir Water ◽  
Pretreatment Method ◽  
Analysis Techniques ◽  
Rotifer Species

We designed an experiment to analyze the gut content of Rotifera based on DNA barcoding and tested it on Asplanchna sp. in order to ensure that the DNA extracted from the rotifer species is from the food sources within the gut. We selected ethanol fixation (60%) to minimize the inflow effects of treated chemicals, and commercial bleach (the final concentration of 2.5%, for 210 s) to eliminate the extracellular DNA without damage to the lorica. Rotifers have different lorica structures and thicknesses. Therefore, we chose a pretreatment method based on Asplanchna sp., which is known to have weak durability. When we used the determined method on a reservoir water sample, we confirmed that the DNA fragments of Chlorophyceae, Diatomea, Cyanobacteria, and Ciliophora were removed. Given this result, Diatomea and cyanobacteria, detected from Asplanchna, can be considered as gut contents. However, bacteria were not removed by bleach, thus there was still insufficient information. Since the results of applying commercial bleach to rotifer species confirmed that pretreatment worked effectively for some species of rotifers food sources, in further studies, it is believed to be applicable to the gut contents analysis of more diverse rotifers species and better DNA analysis techniques by supplementing more rigorous limitations.

Gut content and stable isotope analysis of tadpoles in floodplain wetlands

2018 ◽  
Vol 66 (4) ◽  
pp. 261 ◽  
Author(s):  
J. F. Ocock ◽  
K. J. Brandis ◽  
B. J. Wolfenden ◽  
K. M. Jenkins ◽  
S. Wassens
Keyword(s):  
Stable Isotope ◽  
Stable Isotope Analysis ◽  
Management Strategies ◽  
Isotope Analysis ◽  
Food Sources ◽  
Gut Contents ◽  
Floodplain Wetlands ◽  
Gut Content ◽  
Larval Amphibians ◽  
Aquatic Food

Larval amphibians (tadpoles) are an important link in aquatic food webs, as they can be highly abundant consumers and prey for a wide variety of predators. Most tadpoles are considered omnivores, predominately grazing on algae, detritus and macrophytes, though recent work has identified greater plasticity and breadth in diet than previously considered. We used gut content and stable isotope analysis (SIA) in a baseline study to determine the important dietary items (ingested material) and food sources (assimilated material) for tadpoles of two abundant generalist frog species in regulated floodplain wetlands of the Murrumbidgee River, south-east Australia. We identified a wide variety of dietary items in the gut contents, including whole microcrustaceans, filamentous algae and macrophytes. The composition of several ingested food items was correlated with their availability in each wetland. However, SIA identified biofilm as the food source most consistently assimilated across several wetlands, though microcrustaceans and algae contributed when abundant. Biofilm is likely the most important basal food item for tadpoles in floodplain wetlands because it is ubiquitous and has a high nutritional quality. Identifying important food sources is a crucial step towards developing management strategies for promoting tadpole recruitment in regulated wetlands.

Parasites in Antarctic krill guts inferred from DNA sequences

2019 ◽  
Vol 31 (1) ◽  
pp. 16-22 ◽  
Author(s):  
Alison C. Cleary ◽  
Maria C. Casas ◽  
Edward G. Durbin ◽  
Jaime Gómez-Gutiérrez
Keyword(s):  
Dna Sequences ◽  
High Frequency ◽  
Dna Analysis ◽  
Antarctic Krill ◽  
Euphausia Superba ◽  
Gut Contents ◽  
The West ◽  
West Antarctic ◽  
Wide Range

AbstractThe keystone role of Antarctic krill,Euphausia superbaDana, in Southern Ocean ecosystems, means it is essential to understand the factors controlling their abundance and secondary production. One such factor that remains poorly known is the role of parasites. A recent study of krill diet using DNA analysis of gut contents provided a snapshot of the parasites present within 170E. superbaguts in a small area along the West Antarctic Peninsula. These parasites includedMetschnikowiaspp. fungi,Haptoglossasp. peronosporomycetes,LankesteriaandParalecudinaspp. apicomplexa,Stegophorussp. nematodes, andPseudocolliniaspp. ciliates. Of these parasites,Metschnikowiaspp. fungi andPseudocolliniaspp. ciliates had previously been observed inE. superba, as had other genera of apicomplexans, though notLankesteriaandParalecudina.In contrast, nematodes had previously only been observed in eggs ofE. superba, and there are no literature reports of peronosporomycetes in euphausiids.Pseudocolliniaspp., parasitoids which obligately kill their host, were the most frequently observed infection, with a prevalence of 12%. The wide range of observed parasites and the relatively high frequency of infections suggest parasites may play a more important role than previously acknowledged inE. superbaecology and population dynamics.

scholarly journals Floating nurseries? Scyphozoan jellyfish, their food and their rich symbiotic fauna in a tropical estuary

2018 ◽  
Author(s):  
José M Riascos ◽  
Willington Aguirre ◽  
Charlotte Hopfe ◽  
Diego Morales ◽  
Ángela Navarrete ◽  
...  
Keyword(s):  
Surface Waters ◽  
The Body ◽  
Food Sources ◽  
Gut Contents ◽  
Estuarine System ◽  
Symbiotic Association ◽  
Bell Diameter ◽  
Associated Fauna ◽  
Size Relationship ◽  
Scyphozoan Jellyfish

The anthropogenic modification of basal trophic pathways is seemingly prompting the increase of jellyfish populations at the expense of planktivorous fishes. However, gross generalizations are often made because the most basic aspects of trophic ecology and the diverse interactions of jellyfish with fishes remain poorly described. Here we inquire on the dynamics of food consumption of the medusoid stage of the scyphozoan jellyfish Stomolophus meleagris and characterize the traits and diversity of its symbiotic community. S. meleagris and their associated fauna were sampled in surface waters between November 2015 and April 2017 in Málaga Bay, an estuarine system at the Colombian Pacific. Stomach contents of medusae were examined and changes in prey composition and abundance over time analysed using a multivariate approach. The associated fauna was identified and the relationship between the size of medusae and the size their symbionts tested using least-square fitting procedures. The presence of S. meleagris medusa in surface waters was seasonal. The gut contents analysis revealed that algae, copepods and fish early life stages were the more abundant items, and PERMANOVA analysis showed that the diet differed within the seasons (P(perm)=0.001) but not between seasons (P(perm)=0.134). The majority of the collected medusae (50.4 %) were associated to individuals of 11 symbiotic species, 95.3% of them fishes, 3.1% crustaceans and 1.6% molluscs. Thereby, this study reports 10 previously unknown associations. The bell diameter of S. meleagris was positively related to the body sizes of their symbionts. However, a stronger fit was observed when the size relationship between S. meleagris and the fish Hemicaranx zelotes was modelled. The ocurrence of S. meleagris was highly seasonal, and the observed patterns of mean body size through the seasons suggested the arrival of adult medusae to the estuary from adjacent waters. The diet of S. meleagris in the study area showed differences with previous reports, chiefly because of the consistent abundance of algae that are seemingly ingested but not digested. The low number of zooplanktonic items in gut contents suggest the contribution of alternative food sources not easily identifiable. The observed changes in the composition of food in the guts probably reflect seasonal changes in the availability of prey items. The regular pattern in the distribution of symbionts among medusae (a single symbiont per host) and the positive host-symbiont size relationship reflects antagonistic intraspecific and interspecific behaviour of the symbiont. This strongly suggest that medusa represent an “economically defendable resource” that potentially increases the survival and recruitment of the symbionts to the adult population. We argue that, if this outcome of the symbiotic association can be proven, scyphozoan jellyfish can be regarded as floating nurseries.

scholarly journals Floating nurseries? Scyphozoan jellyfish, their food and their rich symbiotic fauna in a tropical estuary

2018 ◽  
Author(s):  
José M Riascos ◽  
Willington Aguirre ◽  
Charlotte Hopfe ◽  
Diego Morales ◽  
Ángela Navarrete ◽  
...  
Keyword(s):  
Surface Waters ◽  
The Body ◽  
Food Sources ◽  
Gut Contents ◽  
Estuarine System ◽  
Symbiotic Association ◽  
Bell Diameter ◽  
Associated Fauna ◽  
Size Relationship ◽  
Scyphozoan Jellyfish

The anthropogenic modification of basal trophic pathways is seemingly prompting the increase of jellyfish populations at the expense of planktivorous fishes. However, gross generalizations are often made because the most basic aspects of trophic ecology and the diverse interactions of jellyfish with fishes remain poorly described. Here we inquire on the dynamics of food consumption of the medusoid stage of the scyphozoan jellyfish Stomolophus meleagris and characterize the traits and diversity of its symbiotic community. S. meleagris and their associated fauna were sampled in surface waters between November 2015 and April 2017 in Málaga Bay, an estuarine system at the Colombian Pacific. Stomach contents of medusae were examined and changes in prey composition and abundance over time analysed using a multivariate approach. The associated fauna was identified and the relationship between the size of medusae and the size their symbionts tested using least-square fitting procedures. The presence of S. meleagris medusa in surface waters was seasonal. The gut contents analysis revealed that algae, copepods and fish early life stages were the more abundant items, and PERMANOVA analysis showed that the diet differed within the seasons (P(perm)=0.001) but not between seasons (P(perm)=0.134). The majority of the collected medusae (50.4 %) were associated to individuals of 11 symbiotic species, 95.3% of them fishes, 3.1% crustaceans and 1.6% molluscs. Thereby, this study reports 10 previously unknown associations. The bell diameter of S. meleagris was positively related to the body sizes of their symbionts. However, a stronger fit was observed when the size relationship between S. meleagris and the fish Hemicaranx zelotes was modelled. The ocurrence of S. meleagris was highly seasonal, and the observed patterns of mean body size through the seasons suggested the arrival of adult medusae to the estuary from adjacent waters. The diet of S. meleagris in the study area showed differences with previous reports, chiefly because of the consistent abundance of algae that are seemingly ingested but not digested. The low number of zooplanktonic items in gut contents suggest the contribution of alternative food sources not easily identifiable. The observed changes in the composition of food in the guts probably reflect seasonal changes in the availability of prey items. The regular pattern in the distribution of symbionts among medusae (a single symbiont per host) and the positive host-symbiont size relationship reflects antagonistic intraspecific and interspecific behaviour of the symbiont. This strongly suggest that medusa represent an “economically defendable resource” that potentially increases the survival and recruitment of the symbionts to the adult population. We argue that, if this outcome of the symbiotic association can be proven, scyphozoan jellyfish can be regarded as floating nurseries.

scholarly journals Isolation and characterization of bacteria residing in the oral, gut, and fecal samples of different pheasant species

2023 ◽  
Vol 83 ◽  
Author(s):  
M. Mushtaq ◽  
S. M. Bukhari ◽  
S. Ahmad ◽  
A. Khattak ◽  
M. B. Chattha ◽  
...  
Keyword(s):  
Bacterial Species ◽  
Gut Contents ◽  
Phasianus Colchicus ◽  
Gut Content ◽  
E Coli ◽  
Colony Forming Unit ◽  
Isolation And Characterization ◽  
Staphylococcus Spp ◽  
Campylobacter Spp

Abstract There is a paucity of research conducted on microbial prevalence in pheasants. The microbiota of captive birds has zoonotic significance and must be characterize. Present study is therefore planned to assess the microbiota from oral, fecal and gut content of captive avian species. It will be helpful in characterization of harmful microbes. Different samples taken from oral, gut and feces of ring-necked pheasants (Phasianus colchicus), green pheasants (Phasianus versicolor), golden pheasant (Chrysolophus pictus) and silver pheasant (Lophura nycthemera). Samples were collected, diluted, and inoculated onto different agar plates (MacConkey, SS agar, MSA and nutrient agar) for cultivation of bacterial species. Colonies of E.coli, Staphylococcus spp. Brachyspira spp. and Campylobacter spp were observed based on colony morphology. Colony forming unit showed E. coli as frequently found bacteria in fecal, oral and gut contents of all the above pheasants. The overall significance difference was found among bacterial species of golden pheasants, green pheasant, ring-necked pheasant, and silver pheasants. It was concluded that E.coli is predominant isolated from heathy pheasants followed by Campylobacter, Staphylococcus and Brachyspira.

scholarly journals Food and Feeding Habits of the Mola Carplet Amblypharyngodon mola (Hamilton, 1822) in Rice Field Ecosystem with Consideration of Water Quality Parameters

Our Nature ◽  
2013 ◽  
Vol 11 (1) ◽  
pp. 61-75 ◽  
Author(s):  
Md. Mostafizur Rahman Mondol ◽  
Dil Afroz Nahar ◽  
Somen Dewan ◽  
Md. Mosaddequr Rahman ◽  
Saleha Jasmine ◽  
...  
Keyword(s):  
Water Quality ◽  
Rice Field ◽  
Feeding Habits ◽  
Quality Parameters ◽  
Gut Contents ◽  
Gut Content Analysis ◽  
Gut Content ◽  
Field Ecosystem ◽  
Food And Feeding ◽  
Plankton Population

The present investigation was conducted in the Agronomy field laboratory of Bangladesh Agricultural University, Mymensingh, Bangladesh during May 1999 to August 1999 to reveal the food and feeding habits of Amblypharyngodon mola in the rice field ecosystem. Percentage of frequency of occurrence and percentage in number methods were used for the qualitative and quantitative estimation of plankton population. Results showed that, during the present study, the water quality parameters were within the suitable range for optimal fish growth and plankton population was abundant in the water of the rice plots. Gut content analysis of A. mola revealed a sum of 32 genera of phytoplankton belonging to Chlorophyceae (17), Euglenophyceae (2), Cyanophyceae (7) and Bacillariophyceae (6) and 8 genera of zooplankton under Rotifera (3), Cladocera (2) and Copepoda (3). In general, Navicula, Fragilaria, Chlorella, Chrysococcus, Closterium, Oscillatoria and Gomphosphaeria were found abundant both in the water of the rice plots and in the gut contents of A. mola indicating that, these genera are preferred food of this fish in the rice field ecosystem. Gut content analysis also exposed that, phytoplankton was the major food item constituting 94.38% of the gut contents’ composition of A. mola whereas zooplankton comprised only 5.62%. The results of this study conclude that, the A. mola is planktivorous in nature, feeding mostly on phytoplankton and could be a suitable species for integrated rice-fish farming.DOI: http://dx.doi.org/10.3126/on.v11i1.8245 Our Nature Vol.11(1) 2013: 61-75

scholarly journals Molecular analyses of gut contents: elucidating the feeding of co-occurring salps in the Lazarev Sea from a different perspective

2014 ◽  
Vol 26 (5) ◽  
pp. 545-553 ◽  
Author(s):  
Katja Metfies ◽  
Anja Nicolaus ◽  
Lena Von Harbou ◽  
Ulrich Bathmann ◽  
Ilka Peeken
Keyword(s):  
454 Pyrosequencing ◽  
Sampling Site ◽  
Intergenic Spacer ◽  
Weddell Sea ◽  
Gut Contents ◽  
Selective Feeding ◽  
Gut Content ◽  
Molecular Analyses ◽  
Dominant Component ◽  
Ribosomal Intergenic Spacer

AbstractThe diet of Antarctic salps was elucidated by investigating their gut content using automated ribosomal intergenic spacer analysis (ARISA) and 454-pyrosequencing. Salp samples were collected during the Lazarev Sea Krill Study in the western Weddell Sea (summer 2005–06 and 2007–08, autumn 2004 and winter 2006). Two salp species,Salpa thompsoniandIhlea racovitzai, both occur in the Southern Ocean and can overlap geographically and seasonally. We provide evidence that, despite the non-selective feeding mechanism, the two co-occurring salp species might have different niches within a habitat. ARISA-patterns of 93 gut content samples revealed strong differences between the two salp species, even at the same sampling site. These differences were confirmed by 454-pyrosequencing of the V4-18S rDNA of ten salps. The pyrosequencing data indicate that flagellates, in particular dinophyceae, constitute a high proportion of the sequence reads identified in the gut content of both salp species. However, within the dinophyceae, differences in the read composition were detected between the two salp species. This supports the findings of a previous study where fatty acid signatures indicate a flagellate-based diet, even though microscopic analyses identified diatoms as the dominant component of salp gut contents.

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