Agustí N, De Vicente MC, Gabarra R (1999) Development of sequence amplified characterized region (SCAR) markers of Helicoverpa armigera: a new polymerase chain reaction-based technique for predator gut analysis. Mol Ecol 8(9):1467–1474

Article  Google Scholar 

Agustí N, Symondson WOC (2001) Molecular diagnosis of predation. Antenna 25:250–253

Google Scholar 

Aird D, Ross MG, Chen WS et al (2011) Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries. Genome Biol 12:R18

Article  CAS  Google Scholar 

Alberdi A, Aizpurua O, Gilbert MT, Bohmann K (2018) Scrutinizing key steps for reliable metabarcoding of environmental samples. Methods Ecol Evol 9(1):134–147

Article  Google Scholar 

Altschul SF, Gish W, Miller W et al (1990) Basic local alignment search tool. J Mol Biol 215:403–410

Article  CAS  Google Scholar 

Amend AS, Seifert KA, Bruns TD (2010) Quantifying microbial communities with 454 pyrosequencing: does read abundance count? Mol Ecol 19:5555–5565

Article  CAS  Google Scholar 

Barazzoni R, Short KR, Nair KS (2000) Effects of aging on mitochondrial DNA copy number and cytochrome c oxidase gene expression in rat skeletal muscle, liver, and heart. J Biol Chem 275(5):3343–3347

Article  CAS  Google Scholar 

Barlow JT, Bogatyrev SR, Ismagilov RF (2020) A quantitative sequencing framework for absolute abundance measurements of mucosal and lumenal microbial communities. Nat Commun 11(1):1–3

Google Scholar 

Berlow EL, Neutel AM, Cohen JE, De Ruiter PC, Ebenman BO, Emmerson M, Fox JW, Jansen VA, Iwan Jones J, Kokkoris GD, Logofet D (2004) Interaction strengths in food webs: issues and opportunities. J an Ecol 73(3):585–598

Article  Google Scholar 

Berry D, Mahfoudh KB, Wagner M, Loy A (2011) Barcoded primers used in multiplex amplicon pyrosequencing bias amplification. Appl Environ Microbiol 77:7846–7849

Article  CAS  Google Scholar 

Birkhofer K, Bylund H, Dalin P, Ferlian O, Gagic V, Hambäck PA, ... Jonsson M (2017). Methods to identify the prey of invertebrate predators in terrestrial field studies. Ecol Evol 7(6):1942-1953

Bista I, Carvalho GR, Tang M et al (2018) Performance of amplicon and shotgun sequencing for accurate biomass estimation in invertebrate community samples. Mol Ecol Resour 18:1020–1034

Article  CAS  Google Scholar 

Boreham PFL, Ohiagu CE (1978) The use of serology in evaluating invertebrate predator-prey relationships: a review. Bull Entomol Res 68:171–194

Article  Google Scholar 

Boyer F, Mercier C, Bonin A, Le Bras Y, Taberlet P, Coissac E (2016) Obitools: a unix-inspired software package for DNA metabarcoding. Mol Ecol Resour 16(1):176–182

Article  CAS  Google Scholar 

Braukmann TW, Ivanova NV, Prosser SW, Elbrecht V, Steinke D, Ratnasingham S, ... & Hebert PD (2019) Metabarcoding a diverse arthropod mock community. Mol Ecol Resour 19(3):711-727

Breitwieser FP, Baker DN, Salzberg SL (2018) KrakenUniq: confident and fast metagenomics classification using unique k-mer counts. Genome Biol 19:1–10

Article  Google Scholar 

Bridge PD, Roberts PJ, Spooner BM, Panchal G (2003) On the unreliability of published DNA sequences. New Phytol 160(1):43–48

Article  CAS  Google Scholar 

Brook MM, Proske HO (1946) Precipitin test for determining natural insect predators of immature mosquitoes. J Natl Malar Soc 5:45–56

Google Scholar 

Brown DS, Jarman SN, Symondson WO (2012) Pyrosequencing of prey DNA in reptile faeces: analysis of earthworm consumption by slow worms. Mol Ecol Resour 12(2:259–266.

Calder C, Harwood JD, Symondson WO (2005) Detection of scavenged material in the guts of predators using monoclonal antibodies: a significant source of error in measurement of predation? Bull Entomol Res 95:57–62

Article  CAS  Google Scholar 

Caporaso JG, Kuczynski J, Stombaugh J et al (2010) QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7:335–336

Article  CAS  Google Scholar 

Carlsen T, Aas AB, Lindner D, Vrålstad T, Schumacher T, Kauserud H (2012) Don’t make a mistake: is tag switching an overlooked source of error in amplicon pyrosequencing studies? Fungal Ecol 5(6):747–749

Article  Google Scholar 

Champlot S, Berthelot C, Pruvost M, Bennett EA, Grange T, Geigl EM (2010) An efficient multistrategy DNA decontamination procedure of PCR reagents for hypersensitive PCR applications. PLoS ONE 5(9):e13042

Article  Google Scholar 

Chen Y, Giles KL, Payton ME, Greenstone MH (2000) Identifying key cereal aphid predators by molecular gut analysis. Mol Ecol 9:1887–1898

Article  CAS  Google Scholar 

Clare EL (2014) Molecular detection of trophic interactions: emerging trends, distinct advantages, significant considerations and conservation applications. Evol Appl 7(9):1144–1157

Article  Google Scholar 

Clarke LJ, Soubrier J, Weyrich LS, Cooper A (2014) Environmental metabarcodes for insects: in silico PCR reveals potential for taxonomic bias. Mol Ecol Resour 14:1160–1170

Article  CAS  Google Scholar 

Cline J, Braman JC, Hogrefe HH (1996) PCR fidelity of Pfu DNA polymerase and other thermostable DNA polymerases. Nucleic Acids Res 24:3546–3551

Article  CAS  Google Scholar 

Cohen JE (1978) Food Webs and Niche Space. Princeton University Press

Google Scholar 

Cotterill M, Harris SE, Collado Fernandez E, Lu J, Huntriss JD, Campbell BK, Picton HM (2013) The activity and copy number of mitochondrial DNA in ovine oocytes throughout oogenesis in vivo and during oocyte maturation in vitro. Mol Hum Reprod 19(7):444–450

Article  CAS  Google Scholar 

Crampton-Platt A, Timmermans MJ, Gimmel ML, Kutty SN, Cockerill TD, Vun Khen C, Vogler AP (2015) Soup to tree: the phylogeny of beetles inferred by mitochondrial metagenomics of a Bornean rainforest sample. Mol Biol Evol 32(9):2302–2316

Article  CAS  Google Scholar 

Davey JS, Vaughan IP, King RA, Bell JR, Bohan DA, Bruford MW, Holland JM, Symondson WOC (2013) Intraguild predation in winter wheat: prey choice by a common epigeal carabid consuming spiders. J Appl Ecol 50(1):271–279

Article  Google Scholar 

De Barba M, Miquel C, Boyer F, Mercier C, Rioux D, Coissac E, Taberlet P (2014) DNA metabarcoding multiplexing and validation of data accuracy for diet assessment: application to omnivorous diet. Mol Ecol Resour 14:306–323

Article  Google Scholar 

Deagle B, Eveson J, Jarman S (2006) Quantification of damage in DNA recovered from highly degraded samples - A case study on DNA in faeces. Front Zool 3:11

Article  Google Scholar 

Deagle BE, Tollit DJ (2007) Quantitative analysis of prey DNA in pinniped faeces: potential to estimate diet composition? Conserv Genet 8:743–747

Article  CAS  Google Scholar 

Deagle BE, Kirkwood R, Jarman SN (2009) Analysis of Australian fur seal diet by pyrosequencing prey DNA in faeces. Mol Ecol 18(9):2022–2038

Article  CAS  Google Scholar 

Deagle BE, Thomas AC, Shaffer AK, Trites AW, Jarman SN (2013) Quantifying sequence proportions in a DNA-based diet study using Ion Torrent amplicon sequencing: which counts count? Mol Ecol Resour 13:620–633

Article  CAS  Google Scholar 

Deagle BE, Jarman SN, Coissac E, Pompanon F, Taberlet P (2014) DNA metabarcoding and the COI marker: not a perfect match. Biol Lett 10:20140562

Article  Google Scholar 

Deagle BE, Thomas AC, McInnes JC, Clarke LJ, Vesterinen EJ et al (2019) Counting with DNA in metabarcoding studies: how should we convert sequence reads to dietary data? Mol Ecol 28:391–440

Article  Google Scholar 

Dempster JP (1960) A quantitative study of the predators on the eggs and larvae of the broom beetle, Phytodecta olivacea Forster, using the precipitin test. J an Ecol 29:149–167

Article  Google Scholar 

Dennison DF, Hodkinson ID (1983) Structure of the predatory beetle community in a woodland soil ecosystem. I Prey Selection Pedobiologia 25:109–115

Google Scholar 

Di Muri C, Lawson Handley L, Bean CW, Li J, Peirson G, Sellers GS, Walsh K, Watson HV, Winfield IJ, Hänfling B (2020) Read counts from environmental DNA (eDNA) metabarcoding reflect fish abundance and biomass in drained ponds. Metabarcoding Metagenom 4:97–112

Google Scholar 

Dopheide A, Xie D, Buckley TR, Drummond AJ, Newcomb RD (2019) Impacts of DNA extraction and PCR on DNA metabarcoding estimates of soil biodiversity. Meth Ecol Evol 10(1):120–133

Article  Google Scholar 

Dupuis JR, Roe AD, Sperling FA (2012) Multi-locus species delimitation in closely related animals and fungi: one marker is not enough. Mol Ecol 21(18):4422–4436

Article  Google Scholar 

Elbrecht V, Leese F (2015) Can DNA-based ecosystem assessments quantify species abundance? Testing primer bias and biomass - sequence relationships with an innovative metabarcoding protocol. PLoS ONE 10(7):e0130324

Article  Google Scholar 

Elbrecht V, Taberlet P, Dejean T et al (2016) Testing the potential of a ribosomal 16S marker for DNA metabarcoding of insects. PeerJ 4:e1966

Article  Google Scholar 

Elbrecht V, Leese F (2017) Validation and development of COI metabarcoding primers for freshwater macroinvertebrate bioassessment. Front Environ Sci 5:11

Google Scholar 

Engelbrektson A, Kunin V, Wrighton K et al (2010) Experimental factors affecting PCR-based estimates of microbial species richness and evenness. ISME J 4:642–647

Article  CAS  Google Scholar 

Ferlian O, Scheu S, Pollierer MM (2012) Trophic interactions in centipedes (Chilopoda, Myriapoda) as indicated by fatty acid patterns: variations with life stage, forest age and season. Soil Biol Biochem 52:33–42

Article  CAS  Google Scholar 

Ficetola GF, Miaud C, Pompanon F, Taberlet P (2008) Species detection using environmental DNA from water samples. Biol Lett 4:423–425

Article  Google Scholar 

Ficetola GF, Coissac E, Zundel S et al (2010) An in silico approach for the evaluation of DNA barcodes. BMC Genomics 11:434

Article  Google Scholar 

Ficetola GF, Pansu J, Bonin A, Coissac E, Giguet-Covex C, De Barba M, ... Taberlet, P (2015) Replication levels, false presences and the estimation of the presence/absence from eDNA metabarcoding data. Mol Ecol Resour 15(3):543-556

Ficetola GF, Taberlet P, Coissac E (2016) How to limit false positives in environmental DNA and metabarcoding? Mol Ecol Resour 16:604–607

Article  CAS  Google Scholar 

Fichter BL, Stephen WP (1981) Time related decay in prey antigens ingested by the predator Podisus maculiventris (Hemiptera, Pentatomidae) as detected by ELISA. Oecologia 51:404–407

Article