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Zhang X, Yang W, Blair D, Hu W, Yin M. RNA-seq analysis reveals changes in mRNA expression during development in Daphnia mitsukuri. BMC Genomics 2024; 25:302. [PMID: 38515024 PMCID: PMC10958850 DOI: 10.1186/s12864-024-10210-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2023] [Accepted: 03/11/2024] [Indexed: 03/23/2024] Open
Abstract
Temporal transcriptional variation is a major contributor to functional evolution and the developmental process. Parthenogenetic water fleas of the genus Daphnia (Cladocera) provide an ideal model to characterize gene expression patterns across distinct developmental stages. Herein, we report RNA-seq data for female Daphnia mitsukuri at three developmental stages: the embryo, juvenile (three timepoints) and adult. Comparisons of gene expression patterns among these three developmental stages and weighted gene co-expression network analysis based on expression data across developmental stages identified sets of genes underpinning each of the developmental stages of D. mitsukuri. Specifically, highly expressed genes (HEGs) at the embryonic developmental stage were associated with cell proliferation, ensuring the necessary foundation for subsequent development; HEGs at the juvenile stages were associated with chemosensory perception, visual perception and neurotransmission, allowing individuals to enhance detection of potential environmental risks; HEGs at the adult stage were associated with antioxidative defensive systems, enabling adults to mount an efficient response to perceived environmental risks. Additionally, we found a significant overlap between expanded gene families of Daphnia species and HEGs at the juvenile stages, and these genes were associated with visual perception and neurotransmission. Our work provides a resource of developmental transcriptomes, and comparative analyses that characterize gene expression dynamics throughout development of Daphnia.
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Affiliation(s)
- Xiuping Zhang
- MOE Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Science, Fudan University, Songhu Road 2005, Shanghai, China
| | - Wenwu Yang
- MOE Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Science, Fudan University, Songhu Road 2005, Shanghai, China
| | - David Blair
- College of Marine and Environmental Sciences, James Cook University, Townsville Qld, 4811, Australia
| | - Wei Hu
- MOE Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Science, Fudan University, Songhu Road 2005, Shanghai, China
| | - Mingbo Yin
- MOE Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Science, Fudan University, Songhu Road 2005, Shanghai, China.
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Dadykin IA, Sinev AY, Gu Y, Han BP. Spring and autumn fauna of Cladocera (Crustacea: Branchiopoda) in the center of East Asia plain: Hunan and Hubei Provinces of China. Zootaxa 2023; 5380:1-25. [PMID: 38220794 DOI: 10.11646/zootaxa.5380.1.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2023] [Indexed: 01/16/2024]
Abstract
Cladoceran (Crustacea: Branchiopoda) fauna of Hunan and Hubei provinces of China was studied in April 2014 and October 2018. 49 species of Cladocera were found, Anthalona sanoamuangae Sinev & Kotov, 2012 was recorded for China for the first time. Eight species were newly recorded for central China, taxonomic status of four species was clarified. Among the observed species, 19 taxa are predominantly Boreal, 13 species are recorded predominantly in south part of temperate zone and subtropics, and 17 species are mainly tropical. Significant difference was revealed between the spring and autumn fauna: Boreal species were the most frequent in spring, whereas subtropical and tropical species became more common in autumn. Species diversity and composition of the cladoceran fauna in the center of East Asia plain is discussed.
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Affiliation(s)
- Ivan A Dadykin
- Department of Invertebrate Zoology; Biological Faculty; M.V. Lomonosov Moscow State University; Leninskie Gory 112; Moscow 119991; Russia.
| | - Artem Y Sinev
- Department of Invertebrate Zoology; Biological Faculty; M.V. Lomonosov Moscow State University; Leninskie Gory 112; Moscow 119991; Russia; Biological Faculty; Shenzhen MSU-BIT University; No.1; International University Park Road; Dayun New Town; Longgang District; Shenzhen; Guangdong Province; 518172; China.
| | - Yangliang Gu
- China Institute of Environmental Sciences; Ministry of Ecology and Environment No. 16-18; Ruihe Road; Huangpu District; Guangzhou 510535; China; Department of Ecology and Institute of Hydrobiology; Jinan University; Guangzhou 510632; China.
| | - Bo-Ping Han
- Department of Ecology and Institute of Hydrobiology; Jinan University; Guangzhou 510632; China.
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Kotov AA, Taylor DJ. Daphnia japonica sp. nov. (Crustacea: Cladocera) an eastern Palearctic montane species with mitochondrial discordance. PeerJ 2022; 10:e14113. [PMID: 36213509 PMCID: PMC9541614 DOI: 10.7717/peerj.14113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2021] [Accepted: 09/02/2022] [Indexed: 01/21/2023] Open
Abstract
The Daphnia longispina complex (Crustacea: Cladocera) contains several keystone freshwater species such as D. longispina O.F. Müller (D. rosea Sars is a junior synonym), D. galeata Sars, D. cucullata Sars, and D. dentifera Forbes. The complex is common throughout the Holarctic, but there are several geographic regions where local forms have been assigned to European species names based on a superficial morphological resemblance. Here we examine the species status of a form that was previously assigned to D. rosea from a montane bog pond on Honshu, Japan. We used two nuclear non-coding loci (nDNA), mitochondrial sequences (the ND2 protein-coding region) and morphology for evidence. The mitochondrial gene evidence supported the existence of a divergent lineage that is more closely related to D. galeata than to D. dentifera. However, morphology and the nuclear DNA data indicated a lineage that is most closely related to D. dentifera. As our evidence supported the existence of a cohesive divergent lineage, we described a new species, Daphnia japonica sp. nov. Recognition of local and subalpine diversity in this group is critical as ongoing anthropogenic disturbance has been associated with introductions, local extirpations, and hybridization.
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Affiliation(s)
- Alexey A. Kotov
- Laboratory of Aquatic Ecology and Invasions, A.N. Severtsov Institute of Ecology and Evolution of Russian Academy of Sciences, Moscow, Russia
| | - Derek J. Taylor
- Biological Sciences, State University of New York at Buffalo, Buffalo, NY, United States
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Lu N, Sun Y, Wei J, Gu L, Zhang L, Yang Z, Huang Y. Toxic Microcystis aeruginosa alters the resource allocation in Daphnia mitsukuri responding to fish predation cues. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2021; 278:116918. [PMID: 33743270 DOI: 10.1016/j.envpol.2021.116918] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2020] [Revised: 02/27/2021] [Accepted: 03/06/2021] [Indexed: 06/12/2023]
Abstract
Many prey organisms adaptively respond to predation risk by inducible defenses with underlying tradeoffs in resource allocation. Cyanobacterial blooms expose zooplankton to poor food conditions, affecting the herbivores' fitness. Given the interferences on resources allocation and life history traits, poor-quality cyanobacteria are predicted to affect the adaptive predator-induced responses in zooplankton. Here, we exposed two clones (i.e., clones SH and ZJ) of the cladoceran Daphnia mitsukuri to different combinations of fish predation cues and diets containing toxic Microcystis aeruginosa (0%-30%). D. mitsukuri matured at a small size and had elongated relative tail spine as adaptive responses to fish cues. Despite the comparable tail spine defense, fish cue-induced changes in growth and reproduction in the clone SH were more pronounced than those in the clone ZJ under no M. aeruginosa. Animals accumulated microcystin in the whole body with increasing abundance of M. aeruginosa. However, the inducible enhanced tail spine allometry was not affected, resulting in unchanged tail spine defense by Daphnia under all M. aeruginosa treatments. By contrast, M. aeruginosa remarkably decreased the adaptive maturation size and the offspring number in all animals. However, the inducible reproductive effort tended to increase or remain unchanged depending on clones associated with the constant or decreased responses of the somatic growth effort under increasing M. aeruginosa. Our results suggested that toxic M. aeruginosa did not alter the resource allocation to antipredator morphological defense but affected the somatic growth and reproduction in D. mitsukuri under fish cues. The present study highlights the different effects of toxic cyanobacteria on adaptive predator-induced responses in zooplankton, promoting the understanding for the morphological defense-mediated predator-prey interactions in eutrophic environments.
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Affiliation(s)
- Na Lu
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, School of Biological Sciences, Nanjing Normal University, 1 Wenyuan Road, Nanjing, 210023, China
| | - Yunfei Sun
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, School of Biological Sciences, Nanjing Normal University, 1 Wenyuan Road, Nanjing, 210023, China
| | - Junjun Wei
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, School of Biological Sciences, Nanjing Normal University, 1 Wenyuan Road, Nanjing, 210023, China
| | - Lei Gu
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, School of Biological Sciences, Nanjing Normal University, 1 Wenyuan Road, Nanjing, 210023, China
| | - Lu Zhang
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, School of Biological Sciences, Nanjing Normal University, 1 Wenyuan Road, Nanjing, 210023, China
| | - Zhou Yang
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, School of Biological Sciences, Nanjing Normal University, 1 Wenyuan Road, Nanjing, 210023, China
| | - Yuan Huang
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, School of Biological Sciences, Nanjing Normal University, 1 Wenyuan Road, Nanjing, 210023, China.
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Maruoka N, Urabe J. Competitive abilities and distribution ranges of four asexual
Daphnia pulex
lineages and
Daphnia mitsukuri
in Eurasian continental islands. POPUL ECOL 2020. [DOI: 10.1002/1438-390x.12054] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Natsumi Maruoka
- Graduate School of Life sciences Tohoku University Sendai Japan
| | - Jotaro Urabe
- Graduate School of Life sciences Tohoku University Sendai Japan
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Ma X, Petrusek A, Wolinska J, Hu W, Yin M. Lineage diversity and reproductive modes of the Daphnia pulex group in Chinese lakes and reservoirs. Mol Phylogenet Evol 2019; 130:424-433. [DOI: 10.1016/j.ympev.2018.08.004] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2017] [Revised: 07/24/2018] [Accepted: 08/03/2018] [Indexed: 12/27/2022]
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