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Robinson CV, Porter TM, McGee KM, McCusker M, Wright MTG, Hajibabaei M. Multi-marker DNA metabarcoding detects suites of environmental gradients from an urban harbour. Sci Rep 2022; 12:10556. [PMID: 35732669 PMCID: PMC9217803 DOI: 10.1038/s41598-022-13262-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2022] [Accepted: 04/25/2022] [Indexed: 11/18/2022] Open
Abstract
There is increasing need for biodiversity monitoring, especially in places where potential anthropogenic disturbance may significantly impact ecosystem health. We employed a combination of traditional morphological and bulk macroinvertebrate metabarcoding analyses to benthic samples collected from Toronto Harbour (Ontario, Canada) to compare taxonomic and functional diversity of macroinvertebrates and their responses to environmental gradients. At the species rank, sites assessed using COI metabarcoding showed more variation than sites assessed using morphological methods. Depending on the assessment method, we detected gradients in magnesium (morphological taxa), ammonia (morphological taxa, COI sequence variants), pH (18S sequence variants) as well as gradients in contaminants such as metals (COI & 18S sequence variants) and organochlorines (COI sequence variants). Observed responses to contaminants such as aromatic hydrocarbons and metals align with known patchy distributions in harbour sediments. We determined that the morphological approach may limit the detection of macroinvertebrate responses to lake environmental conditions due to the effort needed to obtain fine level taxonomic assignments necessary to investigate responses. DNA metabarcoding, however, need not be limited to macroinvertebrates, can be automated, and taxonomic assignments are associated with a certain level of accuracy from sequence variants to named taxonomic groups. The capacity to detect change using a scalable approach such as metabarcoding is critical for addressing challenges associated with biodiversity monitoring and ecological investigations.
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Affiliation(s)
- Chloe V Robinson
- Centre for Biodiversity Genomics and Department of Integrative Biology, University of Guelph, Guelph, ON, N1G 2W1, Canada
- Whales Initiative, Ocean Wise Conservation Association, Victoria, BC, V8V 4Z9, Canada
| | - Teresita M Porter
- Centre for Biodiversity Genomics and Department of Integrative Biology, University of Guelph, Guelph, ON, N1G 2W1, Canada
| | - Katie M McGee
- Centre for Biodiversity Genomics and Department of Integrative Biology, University of Guelph, Guelph, ON, N1G 2W1, Canada
| | - Megan McCusker
- Environment and Climate Change Canada, Burlington, ON, L7S 1A1, Canada
| | - Michael T G Wright
- Centre for Biodiversity Genomics and Department of Integrative Biology, University of Guelph, Guelph, ON, N1G 2W1, Canada
| | - Mehrdad Hajibabaei
- Centre for Biodiversity Genomics and Department of Integrative Biology, University of Guelph, Guelph, ON, N1G 2W1, Canada.
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de Resende BO, Ferreira VRS, Brasil LS, Calvão LB, Mendes TP, de Carvalho FG, Mendoza-Penagos CC, Bastos RC, Brito JS, Oliveira-Junior JMB, Dias-Silva K, Luiza-Andrade A, Guillermo R, Cordero-Rivera A, Juen L. Impact of environmental changes on the behavioral diversity of the Odonata (Insecta) in the Amazon. Sci Rep 2021; 11:9742. [PMID: 33963209 PMCID: PMC8105400 DOI: 10.1038/s41598-021-88999-7] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2020] [Accepted: 04/13/2021] [Indexed: 02/03/2023] Open
Abstract
The odonates are insects that have a wide range of reproductive, ritualized territorial, and aggressive behaviors. Changes in behavior are the first response of most odonate species to environmental alterations. In this context, the primary objective of the present study was to assess the effects of environmental alterations resulting from shifts in land use on different aspects of the behavioral diversity of adult odonates. Fieldwork was conducted at 92 low-order streams in two different regions of the Brazilian Amazon. To address our main objective, we measured 29 abiotic variables at each stream, together with five morphological and five behavioral traits of the resident odonates. The results indicate a loss of behaviors at sites impacted by anthropogenic changes, as well as variation in some morphological/behavioral traits under specific environmental conditions. We highlight the importance of considering behavioral traits in the development of conservation strategies, given that species with a unique behavioral repertoire may suffer specific types of extinction pressure.
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Affiliation(s)
- Bethânia O. de Resende
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil ,Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil
| | - Victor Rennan S. Ferreira
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil ,Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil
| | - Leandro S. Brasil
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil
| | - Lenize B. Calvão
- Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil ,Graduate Program in Environmental Sciences-PPGCA, Universidade Federal do Amapá, Macapá, Amapá Brazil
| | - Thiago P. Mendes
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil ,Graduate Program in Agriculture and the Environment-PPGAA, Universidade Estadual do Maranhão, Balsas, Maranhão Brazil
| | - Fernando G. de Carvalho
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil ,Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil
| | - Cristian C. Mendoza-Penagos
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil
| | - Rafael C. Bastos
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil ,Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil
| | - Joás S. Brito
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil ,Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil
| | - José Max B. Oliveira-Junior
- Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil ,Instituto de Ciências e Tecnologia das Águas (ICTA), Universidade Federal do Oeste do Pará (UFOPA), Rua Vera Paz, s/n (Unidade Tapajós) Bairro Salé, Santarém, Pará 68040-255 Brazil
| | - Karina Dias-Silva
- Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil
| | - Ana Luiza-Andrade
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil
| | | | - Adolfo Cordero-Rivera
- Universidade de Vigo, ECOEVO Lab, EE Forestal, Campus Universitario A Xunqueira, 36005 Pontevedra, Spain
| | - Leandro Juen
- Laboratório de Ecologia e Conservação, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil ,Graduate Program in Ecology-PPGECO, Universidade Federal do Pará, Belém, Brazil
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Freitas PV, Montag LFA, Ilha P, Torres NR, Maia C, Deegan L, Nascimento AT, Silva KD. Local effects of deforestation on stream fish assemblages in the amazon-savannah transitional area. NEOTROPICAL ICHTHYOLOGY 2021. [DOI: 10.1590/1982-0224-2021-0098] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Abstract The expansion of agriculture in the southeast Amazon-Savanah transitional area has greatly decreased forest cover and influenced stream structure and functioning. We assessed the effects of forest cover loss on the integrity of streams by assessing stream physical conditions and the taxonomic and functional diversity of fish assemblages in this transitional area. We hypothesize that low forest cover, especially adjacent to streams, results in poor physical conditions (e.g., warmer temperatures, less physical structure, etc.), which in turn will decrease the taxonomic and functional diversity of fish assemblages. We detected that loss of forest cover negatively affects natural stream conditions and reduces the functional diversity of fish assemblages, but we did not find a strong effect on taxonomic diversity. Ambush and stalking predators, diurnal surface pickers (groups that exhibit opportunistic life history strategies), grazers, pickers, and browsers (groups that exhibit equilibrium life history strategies) were the functional groups with the strongest relation to altered environments. These groups can explore different niches, both with natural characteristics or altered by human activities. Our results suggest that the preservation of riparian zones can minimize the loss of specialized fish species in assemblages of Amazon-Savannah stream systems.
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Affiliation(s)
- Pâmela V. Freitas
- Universidade Federal do Pará, Brazil; Instituto de Ciências Biológicas, Brazil
| | | | - Paulo Ilha
- Instituto de Pesquisa Ambiental da Amazônia, Brazil
| | - Naiara R. Torres
- Instituto de Ciências Biológicas, Brazil; Universidade Federal do Pará, Brazil
| | - Calebe Maia
- Universidade Federal do Pará, Brazil; Instituto de Ciências Biológicas, Brazil
| | | | | | - Karina Dias Silva
- Universidade Federal do Pará, Brazil; Universidade Federal do Pará, Brazil
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Luiza-Andrade A, Brasil LS, Torres NR, Brito J, Silva RR, Maioli LU, Barbirato MF, Rolim SG, Juen L. Effects of Local Environmental and Landscape Variables on the Taxonomic and Trophic Composition of Aquatic Insects in a Rare Forest Formation of the Brazilian Amazon. NEOTROPICAL ENTOMOLOGY 2020; 49:821-831. [PMID: 32946024 DOI: 10.1007/s13744-020-00814-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Accepted: 08/21/2020] [Indexed: 06/11/2023]
Abstract
In the present study, we analyzed a unique phytophysiognomy in the Amazon region, which is formed by savanna-like vegetation on iron-rich soil (known locally as canga) located within an iron-ore mining region. We used the habitat template theory to test the hypothesis that changes in the physical-chemical properties of streams and the physical structure of their habitats at in-stream and micro-basin (landscape) levels affect the taxonomic and trophic composition of immature aquatic insects. For this, we used a local environmental matrix composed of nine physical-chemical and structural habitat variables, together with the Habitat Integrity Index. We also calculated landscape metrics based on the area of the micro-basin, such as relief, slope, mean current flow, and vegetation cover. We divided the aquatic insects into five functional feeding groups based on their diet and food sources. Our results indicate that changes in the trophic level of the insects of the orders Ephemeroptera, Plecoptera, and Trichoptera are more easily observed than the taxonomic structure of communities. The loss of environmental integrity and vegetation cover were responsible for 84% of the variation observed in the composition of functional feeding groups (FFGs). Our study shows that aquatic insect communities in the canga and in the Amazon regions dominated by forest require specific in-stream and landscape conditions. These findings reinforce the need for the preservation of areas of canga vegetation, which not only have a unique levels of biological diversity, but are also targeted for the exploitation of their economically valuable natural resources.
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Affiliation(s)
- A Luiza-Andrade
- Graduate Program in Zoology, Instituto de Ciências Biológicas, Univ Federal do Pará/Museu Paraense Emilio Goeldi, Belém, Pará, Brasil.
| | - L S Brasil
- Graduate Program in Zoology, Instituto de Ciências Biológicas, Univ Federal do Pará/Museu Paraense Emilio Goeldi, Belém, Pará, Brasil
| | - N R Torres
- Graduate Program in Aquatic Ecology and Fisheries, Instituto de Ciências Biológicas, Univ Federal do Pará, Belém, Pará, Brasil
| | - J Brito
- Graduate Program in Ecology, Instituto de Ciências Biológicas, Univ Federal do Pará, Belém, Pará, Brasil
| | - R R Silva
- Graduate Program in Zoology, Instituto de Ciências Biológicas, Univ Federal do Pará/Museu Paraense Emilio Goeldi, Belém, Pará, Brasil
| | - L U Maioli
- Environmental Management, Vale S.A. Canaã dos Carajás, Carajás, Pará, Brasil
| | - M F Barbirato
- Environmental Management, Vale S.A. Canaã dos Carajás, Carajás, Pará, Brasil
| | - S G Rolim
- Project Coordination, Amplo Engenharia e Gestão de Projetos Ltd., Belo Horizonte, Minas Gerais, Brasil
| | - L Juen
- Graduate Program in Zoology, Instituto de Ciências Biológicas, Univ Federal do Pará/Museu Paraense Emilio Goeldi, Belém, Pará, Brasil
- Graduate Program in Ecology, Instituto de Ciências Biológicas, Univ Federal do Pará, Belém, Pará, Brasil
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Wang L, Gao Y, Han BP, Fan H, Yang H. The impacts of agriculture on macroinvertebrate communities: From structural changes to functional changes in Asia's cold region streams. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 676:155-164. [PMID: 31035084 DOI: 10.1016/j.scitotenv.2019.04.272] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2019] [Revised: 03/22/2019] [Accepted: 04/17/2019] [Indexed: 06/09/2023]
Abstract
The species composition of macroinvertebrate communities is sensitive to environmental changes. However, the influence of human activity over seasons on the functional characteristics of macroinvertebrate communities is poorly understood. To elucidate the effects of agriculture-induced environmental changes on stream ecosystems in cold regions, we conducted a comparative study of an agricultural stream and a forest stream in the Changbai Mountains in northeast China in the summer, autumn, and winter of 2016. Our results showed that agriculture had significant effects on the species and functional composition. Although some sensitive species with "Swimmer" and "Shredder" traits disappeared, there was a significant increase in species with resilience and resistance traits such as "Bi- or multivoltine" in the agricultural stream. This result was attributed to the effects of agricultural practices on habitat stability, heterogeneity of habitats, water quality, and material cycling of the stream ecosystems. Furthermore, functional richness and functional divergence decreased in the agricultural stream, reflecting the strong effects of agricultural disturbance on the resource-use efficiency and functional diversification of communities. In particular, community stability also showed significant decrease in the agricultural stream in the summer, implying a stronger disturbance during this season. Generally, the functional traits and biodiversity of both streams had significant seasonal dynamics. The decrease in biodiversity in the winter indicated that low temperature and freezing are additional critical factors affecting the stability of stream ecosystems in cold regions.
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Affiliation(s)
- Lu Wang
- Key Laboratory of Vegetation Ecology, Ministry of Education, Northeast Normal University, Changchun 130024, China
| | - Yingzhi Gao
- Key Laboratory of Vegetation Ecology, Ministry of Education, Northeast Normal University, Changchun 130024, China.
| | - Bo-Ping Han
- Institute of Hydrobiology, Jinan University, Guangzhou 510632, China
| | - Haijuan Fan
- Key Laboratory of Vegetation Ecology, Ministry of Education, Northeast Normal University, Changchun 130024, China
| | - Haijun Yang
- Key Laboratory of Vegetation Ecology, Ministry of Education, Northeast Normal University, Changchun 130024, China; School of Biology and Geography Science, Yili Normal University, Yining 835000, China.
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