(C) 2013 Jan Klimaszewski. This is an open access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC-BY), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
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Citation: Klimaszewski J, Morency M-J, Labrie P, Séguin A, Langor D, Work T, Bourdon C, Thiffault E, Paré D, Newton AF, Thayer MK (2013) Molecular and microscopic analysis of the gut contents of abundant rove beetle species (Coleoptera, Staphylinidae) in the boreal balsam fir forest of Quebec, Canada. ZooKeys 353: 1–24. doi: 10.3897/zookeys.353.5991
Experimental research on beetle responses to removal of logging residues following clearcut harvesting in the boreal balsam fir forest of Quebec revealed several abundant rove beetle (Staphylinidae) species potentially important for long-term monitoring. To understand the trophic affiliations of these species in forest ecosystems, it was necessary to analyze their gut contents. We used microscopic and molecular (DNA) methods to identify the gut contents of the following rove beetles: Atheta capsularis Klimaszewski, Atheta klagesi Bernhauer, Oxypoda grandipennis (Casey), Bryophacis smetanai Campbell, Ischnosoma longicorne (Mäklin), Mycetoporus montanus Luze, Tachinus frigidus Erichson, Tachinus fumipennis (Say), Tachinus quebecensis Robert, and Pseudopsis subulata Herman. We found no apparent arthropod fragments within the guts; however, a number of fungi were identified by DNA sequences, including filamentous fungi and budding yeasts [Ascomycota: Candida derodonti Suh & Blackwell (accession number FJ623605), Candida mesenterica (Geiger) Diddens & Lodder (accession number FM178362), Candida railenensis Ramirez and Gonzáles (accession number JX455763), Candida sophie-reginae Ramirez & González (accession number HQ652073), Candida sp. (accession number AY498864), Pichia delftensis Beech (accession number AY923246), Pichia membranifaciens Hansen (accession number JQ26345), Pichia misumaiensis Y. Sasaki and Tak. Yoshida ex Kurtzman 2000 (accession number U73581), Pichia sp. (accession number AM261630), Cladosporium sp. (accession number KF367501), Acremoniumpsammosporum W. Gams (accession number GU566287), Alternaria sp. (accession number GU584946), Aspergillus versicolor Bubak (accession number AJ937750), and Aspergillusamstelodami (L. Mangin) Thom and Church (accession number HQ728257)]. In addition, two species of bacteria [Bradyrhizobium japonicum (Kirchner) Jordan (accession number BA000040) and Serratia marcescens Bizio accession number CP003942] were found in the guts. These results not only provide evidence of the consumer-resource relations of these beetles but also clarify the relationship between rove beetles, woody debris and fungi. Predominance of yeast-feeding by abundant rove beetles suggests that it may play an important role in their dietary requirements.
Rove beetles, Staphylinidae, Coleoptera, diet, fungivory, mycophagy, gut analysis, trophic relationship, saproxylic, boreal forest, Canada, Ascomycota, Basidiomycota, bacteria
Rove beetles (Coleoptera: Staphylinidae) have proven to be useful indicators of forest disturbance and recovery because they are sensitive to environmental perturbations, diverse in species and trophic roles, easily sampled, and at least in central Europe and Canada, mostly readily identified using a wealth of available taxonomic tools (
Rove beetles are a diverse group exhibiting a wide variety of trophic relationships and occupying numerous microhabitats in forest ecosystems. Many Aleocharinae and Staphylininae, e.g., species of Aleochara, Philonthus, Platydracus, and Staphylinus, are voraciouspredators of other arthropods such as fly larvae (
In this study we use both microscopic examination and molecular analysis of gut contents to more precisely characterize the feeding habits and trophic role of 10 rove beetle species common in the boreal forest of Quebec. There are few published data on gut contents, of these species and little is known of their food affiliations, except for some general statements on habitat preferences of Tachinus species (
Rove beetles were collected as part of a large field experiment examining the impacts of biomass harvesting on forest ecosystem functioning (
Six dried and mounted specimens of each species were selected from samples collected in 2012. Individual specimens were softened in distilled water and ammonia solution for about 15 minutes and their guts were dissected in distilled water under a stereoscopic microscope. The colon and rectum of the hindgut were transferred directly to absolute alcohol, placed on a glass slide with Canada balsam, and pressed by dissecting needles to liberate gut contents and then covered with a cover slip. Slides were studied under a compound microscope (Reichert, Vienna, Austria) and photographs were taken using an Olympus DP73 digital camera. The following publications were consulted for fungal spore illustrations:
DNA from gut contents was extracted from 10 individuals of each species of rove beetle using the QIAamp DNA Micro kit from Qiagen, according to the manufacturer’s specifications. Gut contents from the 10 individuals were pooled for DNA extraction. DNA samples were eluted from the columns in 100 µL of PCR grade nuclease-free water and the concentration was determined spectrophotometrically by reading absorbance at 260 nm and 280 nm with the Synergy Mx microplate reader (BioTek).
PCR amplifications were performed using three primers universal to the internal transcribed spacer (ITS) regions of the nuclear ribosomal repeat and used in the following combinations (ITS9mun+ITS4 or ITS5+ITS4). The detailed sequences of the primers are given in Table 1; they specifically amplify a DNA fragment covering the ITS1 region, the 5.8S rRNA gene, and the ITS2 region between the 18S and 28S rRNA genes (Fig. 1).
Primers used in this study.
Primer name | Primer sequence, 5’-3’ | Primer source study |
---|---|---|
ITS9mun | TGTACACACCGCCCGTCG | |
ITS5 | GGAAGTAAAAGTCGTAACAAGG | |
ITS4 | TCCTCCGCTTATTGATATGC |
Map of ribosomal RNA genes and ITS regions.
Body images of rove beetles in dorsal view: 2 Atheta capsularis Klimaszewski 3 Atheta klagesi Bernhauer 4 Oxypoda grandipennis (Casey) 5 Bryophacis smetanai Campbell 6 Ischnosoma longicorne (Mäklin) [previously cited as synonymous Ischnosoma fimbriatum Campbell] 7 Mycetoporus montanus Luze [previously cited as synonymous Mycetoporus rugosus Hatch].
Body images of rove beetles in dorsal view: 8 Tachinus frigidus Erichson 9 Tachinus fumipennis (Say) 10 Tachinus quebecensis Robert 11 Pseudopsis subulata Herman.
The PCR reactions contained 30 ng of DNA, 2X HotStarTaq Plus Master Mix from Qiagen, which contains one unit of HotStarTaq Plus DNA Polymerase, PCR Buffer with 1.5 mM MgCl2, 200 μM of each dNTP and 0.3 μM of each primer in a 30 µL final reaction. PCR amplification was carried out using an initial denaturation step at 95°C for 15 min, followed by 35 cycles: 15s at 95°C, 30s at 52°C, 30s at 72°C, and a final extension for 10 min at 72°C. Cycling was performed on a PTC200 Peltier Thermal Cycler (MJ Research). Amplified fragments were inserted directly in the TA cloning vector (Invitrogen) and transformed into Escherichia coli strain DH10B. Plasmids were isolated using the Qiacube with the Qiagen miniprep columns (Qiagen) and sequenced with an ABI 3730xl Data Analyzer (Applied Biosystems). After removing the DNA cloning vector segments, the remaining sequences were compared with reference sequences contained in the GenBank nucleotide sequence database using the BLAST algorithm (
We observed no cuticle characteristic of arthropods in the guts of any dissected individuals. The only identifiable material was yeasts and fungal spores. Through microscopic observation of spore morphology, we were unable to discriminate among the yeast species, so these were recorded simply as “yeasts” (Figs 12–18, 20, 30, 32, 34, 35). However, at least seven different spore types could be discriminated using microscopic techniques and available taxonomic resources, although they could not be identified with certainty (Figs 17 [spore type 1]; 19 [spore type 2]; 21, 22, 27, 29? [spore type 3]; 23, 24 [spore type 4]; 25, 26, 28 [spore types 5 and/or 6]; and 31, 33 [spore type 7]). Some of these spores are of the following morphology: (long arthrospore fragment, Fig. 17); immature ascomycete cleistothecia or pycnidia, (Fig. 19, spore # 2); and dark walled spores (Figs 31, 33, spore # 7; dark coloured spores, Figs 23, 24, spore # 4). All 10 rove beetle species had yeasts in their hindgut, but spores were found only in the six tachyporine species and were missing in Aleocharinae and Pseudopsinae (Table 2). Yeasts were densely packed in Aleocharinae and Pseudopsinae and less so in remaining species. Spore types 1, 2, 6, and 7 were each found in a single species, while types 3, 4, and 5 were found in Tachinus fumipennis and either Tachinus frigidus or Mycetoporus montanus (Table 2). These two species of Tachinus had the most diverse spore diets (three types each).
Distribution of yeast and spores in different rove beetle species from microscopical observation. Subfamilies are: A, Aleocharinae; P, Pseudopsinae; T, Tachyporinae.
Rove beetle species | Spore Type | |||||||
---|---|---|---|---|---|---|---|---|
Yeast | 1 | 2 | 3 | 4 | 5 | 6 | 7 | |
Atheta capsularis (A) | × | |||||||
Atheta klagesi (A) | × | |||||||
Oxypoda grandipennis (A) | × | |||||||
Bryophacis smetanai (T) | × | × | ||||||
Ischnosoma longicorne (T) | × | × | ||||||
Mycetoporus montanus (T) | × | × | ||||||
Tachinus frigidus (T) | × | × | × | × | ||||
Tachinus fumipennis (T) | × | × | × | × | ||||
Tachinus quebecensis (T) | × | × | ||||||
Pseudopsis subulata (P) | × |
Images of hindgut content of the following rove beetle species: 12–13 Atheta capsularis Klimaszewski 14–15 Atheta klagesi Bernhauer.
Images of hindgut content of the following rove beetle species: 16 Oxypoda grandipennis (Casey) 17–18 Bryophacis smetanai Campbell 19 Ischnosoma longicorne (Mäklin).
Images of hindgut content of the following rove beetle species: 20 Ischnosoma longicorne (Mäklin) 21–22 Mycetoporus montanus Luze 23 Tachinus frigidus Erichson.
Images of hindgut content of the following rove beetle species: 24–26 Tachinus frigidus Erichson 27 Tachinus fumipennis (Say).
Images of hindgut content of the following rove beetle species: 28–30 Tachinus fumipennis (Say) 31 Tachinus quebecensis Robert.
Images of hindgut content of the following rove beetle species: 32–33 Tachinus quebecensis Robert 34–35 Pseudopsis subulata Herman.
In total, we obtained 186 fungal and bacterial sequences from the 10 species of rove beetles, ranging from 19–33 sequences per species (Table 3). Of these, 134 (72%) could be identified to genus, species, or unnamed clones with high certainty (>90% sequence match) by comparison to sequences in the GenBank and MycoBank databases. Twenty-nine sequences (2 fungal and all 27 bacterial) showed lower levels of sequence similarity (78–90%). We could not match 23 sequences (a range of 0 to 24% unmatched sequences per species, see Table 3).
Number and identity of genetic sequences extracted from the gut contents of 10 species of Staphylinidae. Accession numbers in brackets follow species name in the first column.
Specific taxon | Atheta capsularis | Atheta klagesi | Oxypoda grandipennis | Bryophacis smetanai | Ischnosoma longicorne | Mycetoporus montanus | Tachinus frigidus | Tachinus fumipennis | Tachinus quebecensis | Pseudopsis subulata | Total |
---|---|---|---|---|---|---|---|---|---|---|---|
Fungi | |||||||||||
Acremonium psammosporum (GU566287) | 2 |
2 |
|||||||||
Alternaria sp. (GU584946) | 1 | 1 | |||||||||
Aspergillus amstelodami (HQ728257) | 1 | 1 | |||||||||
Aspergillus versicolor (AJ937750) | 1 | 1 | |||||||||
Candida cretensis (HF558653) | 1 | 1 | 16 | 18 | |||||||
Candida mesenterica (FM178362) | 12 | 8 | 12 | 14 | 5 | 9 | 4 | 20 | 8 | 92 | |
Candida sophiae-reginae (HQ652073) | 1 | 1 | |||||||||
Candida railenensis (JX455763) | 1 | 1 | |||||||||
Candida sp. (AY498864) | 1 | 1 | |||||||||
Cladosporium tassiana (AF393706) | 1 | 1 | |||||||||
Cryptococcus (uncultured) (KC753404) | 1 | 2 | 1 | 4 | |||||||
Hypocreales sp. TR114 (HQ608125) | 1 | 1 | |||||||||
Penicillium spinulosum (GU566252) | 1 | 1 | |||||||||
Pichia delftensis (AY923246) | 1 | 1 | |||||||||
Pichia misumaiensis (U73581) | 1 | 1 | |||||||||
Pichia membranifaciens (JQ26345) | 1 | 1 | |||||||||
Rhodotorula mucilaginosa (HQ702343) | 1 | 1 | |||||||||
Uncultured fungus clone 50-p12-A5 (HQ267068) | 2 | 5 | 7 | ||||||||
Insects | |||||||||||
Ten species from this study | 6 | 8 | 1 | 5 | 10 | 7 | 37 | ||||
Bacteria | |||||||||||
Bradyrhizobium japonicum (BA000040) | 1 |
2 |
3 |
||||||||
Serratia marcescens (CP003942) | 4 |
1 |
1 |
2 |
16 |
24 |
|||||
Unmatched sequences | 4 | 3 | 1 | 2 | 1 | 1 | 3 | 0 | 0 | 8 | 23 |
Total | 19 | 20 | 21 | 22 | 19 | 22 | 25 | 22 | 20 | 33 | 223 |
a Sequences with 86 to 90% sequence similarity.
b Sequences with 78 to 85% sequence similarity.
In all, we identified 17 fungal taxa in the phyla Ascomycota and Basidiomycota and two bacterial taxa in the phylum Proteobacteria through molecular analysis (Table 3). The number of taxa distinguished from each staphylinid species varied from one in Oxypoda grandipennis and Bryophacis smetanai to eight in Tachinus quebecensis, and averaged 3.3 per species (Table 3). We found yeasts in all of the 10 beetle species studied, with Candida mesenterica (Geiger) Diddens & Lodder accounting for 92 sequences and occurring in 9 of the 10 beetle species. The next most commonly identified taxon was the bacterial species Serratia marcescens Bizio, which accounted for 24 sequences found in five beetle species. The vast majority of taxa in beetle guts were found in just one (13 taxa) or two (1 taxon) sequences.
Both dissection and molecular analysis of guts strongly suggest that rove beetles in this study may feed primarily on yeasts. Yeasts are ubiquitous (in soil, on decaying plant material including deadwood, and on berries) and they are an important part of the diet of at least some fungivorous beetle species (
With the exception of the relatively broad consumption of Candida mesenterica yeasts by most species, finer patterns in feeding preferences among rove beetles were difficult to assess. This was partly a result of the limited number of matched sequences for some species, which in turn probably reflects in part the limits of available reference sequences. The limited numbers of sequences obtained in our study could be related to degradation of DNA as the result of suboptimal preservation medium.
The prevalence of other fungi in addition to yeasts and the presence of spores in rove beetle guts was not unexpected, as many rove beetle species are associated with fungi (
Although we isolated bacteria less commonly than fungi, we did find them in six beetle species. The second most commonly detected sequence, in fact, was from the bacterium Serratia marcescens, which is associated with soils; it may sometimes be pathogenic to insects (
It is notable that no arthropod cuticle or evidence of animal DNA sequences were found in the guts of any of these species despite the fact that predation on arthropods (especially mites, springtails, and smaller insects) is common in the family (
In work conducted to characterize rove beetle responses to removal of logging residues following clearcut harvesting in boreal balsam fir forests of Quebec (
Pseudopsis subulata was the most common species to show a strong affinity for disturbed stands, specifically stands subjected to whole tree harvesting, although it was also found in uncut stands and in stands subjected to harvesting with debris left behind (
Mycetoporus montanus was not collected during the first year of the study (
Ischnosoma longicorne was commonly found in both uncut and disturbed stands (
Feeding associations between rove beetles and yeasts provide some insight into potential mechanisms by which biomass harvesting may impact rove beetles. Our results may suggest that dominant rove beetles are feeding on yeasts and other fungi that may or may not be directly associated with sporocarps growing on deadwood substrates. It is important to understand the complexity of factors linking the studied beetles to biomass removal treatments. The removal of additional forest biomass may be affecting beetles not only via potential food linkages, but also by other non-trophic mechanisms such as changes in physical conditions following the removal of the forest overstory (
In addition to characterizing food sources for some abundant species of rove beetles, many of which are good ecological indicators, our work provides some possible explanations for beetle response patterns in the wake of forest disturbance. The relatively easy application of DNA sequencing to gut contents and the steadily increasing wealth of sequence data available to serve as an identification resource means that these techniques can now be readily applied in disturbance ecology research to investigate species response patterns and habitat preferences. We encourage broader use of this approach to support future work.
We are grateful to the following individuals for contributing to our research: M. Blais, G. Laflamme, P. DesRochers, and J. Bérubé (Laurentian Forestry Centre – LFC) for useful advice and reference recommendations; S. Dagnault and J. Morissette (LFC) for their help with site preparation, and casual employees R. Batista (Montreal) and A. Gilbert (Québec) for helping with site preparation and collecting and processing insect samples at the Montmorency Experimental Forest. Julie Bouliane and Patrick Pineault of Université Laval, Quebec, helped us with the logistics, site preparation and helpful advice. Pamela Cheers and Isabelle Lamarre (LFC) edited the manuscript and prepared it for publication.
Biological notes about some taxa found in staphylinid guts
(Fungal classification below is from
Kingdom FUNGI
Phylum ASCOMYCOTA
Ascomycota, also known as sac fungi, is a sister group of the Basidomycota. This group contains the majority of fungi, including yeasts.
Saccharomycetales: Saccharomycetaceae: Candida
Candida is a yeast and the most common cause of opportunistic mycoses worldwide. It is also a frequent colonizer of human skin and mucous membranes. It is also a pathogen and a colonizer, found on leaves, flowers, in water, and in soil. While most Candida species are mitosporic, some have a known teleomorphic state and produce sexual spores.
Saccharomycetales: Saccharomycetaceae: Cladosporium
Cladosporium is a dematiaceous (pigmented) mould widely distributed in the air and rotten organic material, and frequently isolated as a contaminant in food. Some species are predominant in tropical and subtropical regions. Some Cladosporium species are isolated from fish and are associated with infections.
Saccharomycetales: Endomycetaceae: Pichia
Pichia is a teleomorph that produces ascospores. The anamorphs of the Pichia species are various Candida species. The connection of Candida species with their corresponding Pichia teleomorphs is based on observation of the ascospores produced by the Candida isolate or, more specifically, on the 28S gene sequence data. Pichia ohmeri was initially isolated from cucumber brine and is commonly used in the food industry for fermentation in pickles, rinds, and fruits. Clinically, Pichia is generally considered to be a contaminant. However, some Pichia species are now recognized as clinically significant opportunistic pathogens.
Eurotiales: Trichocomaceae: Aspergillus
Aspergillus is a filamentous, cosmopolitan and ubiquitous fungus found in nature. It is commonly isolated from soil, plant debris, and indoor air environment. While a teleomorphic state has been described for only some of the Aspergillus species, others are accepted to be mitosporic, without any known sexual spore production.
Pleosporales: Pleosporaceae: Alternaria
Alternaria is a cosmopolitan dematiaceous (pigmented) fungus commonly isolated from plants, soil, food, and indoor air environment. The production of melanin-like pigmentation is one of its major characteristics. Its teleomorphic genera are Clathrospora and Leptosphaeria.
Hypocreales: Hypocreaceae: Acremonium
Acremonium contains, cosmopolitan filamentous fungi commonly isolated from plant debris and soil. The sexual state of Acremonium is not well-defined. Thus, it is classified among the deuteromycetes group of fungi by some authorities. Others prefer to include it in the phylum Ascomycota, since its structural properties are similar to those of this group.
Phylum BASIDIOMYCOTA
Basidiomycota contains a wide variety of organisms. It is estimated that there are about 30, 000 species in this group. While it is best known for fruiting bodies such as mushrooms, puffballs, and bracket fungi, it also contains microscopical fungi. These include rust and smut fungi, which are both parasites. Basidiomycota fungi are considered to be the most evolutionarily derived of all fungal phyla. Like Ascomycota, the Basidiomycota also contains some forms of yeast. Therefore, the organisms within this classification can be either unicellular or multicellular. There are three major groups within this classification: Urediniomycetes, which includes rusts and other taxa; Ustilaginomycetes, which are largely composed of smuts; and Hymenomycetes, which are composed of mushrooms and jelly fungi.
Sporidiales: Sporidiobolaceae: Cryptococcus
Cryptococcus is an encapsulated yeast. Following its first identification in nature from peach juice samples, the major environmental sources of Cryptococcus neoformans have been shown to be either soil contaminated with pigeon droppings (Cryptococcus neoformans var. neoformans) or eucalyptus trees and decaying wood forming hollows in living trees (Cryptococcus neoformans var. gattii). Cryptococcus neoformans var. gattii was also isolated from goats with pulmonary disease.
Sporidiales: Sporidiobolaceae: Rhodotorula
Rhodotorula is a yeast found in air, soil, lakes and ocean water, and dairy products. It may colonize plants.
Kingdom EUBACTERIA
Phylum: PROTEOBACTERIA
Enterobacteriales: Enterobacteriaceae: Serratia
Serratia marcescens is a motile, short, rod-shaped, gram-negative, facultative anaerobe bacterium classified as an opportunistic pathogen. Serratia marcescens was first thought to be harmless (non-pathogenic). Optimally, Serratia marcescens grows at 37°C, but it can grow at temperatures that range from 5 to 40°C. It grows at pH levels that range from 5 to 9. Serratia marcescens is well known for the red pigmentation it produces, called prodigiosin.
Rhizobiales: Bradyrhizobiaceae: Bradyrhizobium
Members of this genus, including Bradyrhizobium japonicum, are gram-negative soil bacteria that fix nitrogen and are commonly associated with legume plants.
Hyperlinks for microorganism identification.