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Zhang R, Liu Q, Pan S, Zhang Y, Qin Y, Du X, Yuan Z, Lu Y, Song Y, Zhang M, Zhang N, Ma J, Zhang Z, Jia X, Wang K, He S, Liu S, Ni M, Liu X, Xu X, Yang H, Wang J, Seim I, Fan G. A single-cell atlas of West African lungfish respiratory system reveals evolutionary adaptations to terrestrialization. Nat Commun 2023; 14:5630. [PMID: 37699889 PMCID: PMC10497629 DOI: 10.1038/s41467-023-41309-3] [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: 12/01/2022] [Accepted: 08/30/2023] [Indexed: 09/14/2023] Open
Abstract
The six species of lungfish possess both lungs and gills and are the closest extant relatives of tetrapods. Here, we report a single-cell transcriptome atlas of the West African lungfish (Protopterus annectens). This species manifests the most extreme form of terrestrialization, a life history strategy to survive dry periods that can last for years, characterized by dormancy and reversible adaptive changes of the gills and lungs. Our atlas highlights the cell type diversity of the West African lungfish, including gene expression consistent with phenotype changes of terrestrialization. Comparison with terrestrial tetrapods and ray-finned fishes reveals broad homology between the swim bladder and lung cell types as well as shared and idiosyncratic changes of the external gills of the West African lungfish and the internal gills of Atlantic salmon. The single-cell atlas presented here provides a valuable resource for further exploration of the respiratory system evolution in vertebrates and the diversity of lungfish terrestrialization.
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Affiliation(s)
- Ruihua Zhang
- College of Life Sciences, University of Chinese Academy of Sciences, 100049, Beijing, China
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
| | - Qun Liu
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
- Department of Biology, University of Copenhagen, Copenhagen, 2100, Denmark
| | - Shanshan Pan
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
| | - Yingying Zhang
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
| | - Yating Qin
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
| | - Xiao Du
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
- BGI Research, 518083, Shenzhen, China
| | - Zengbao Yuan
- College of Life Sciences, University of Chinese Academy of Sciences, 100049, Beijing, China
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
| | - Yongrui Lu
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, 430072, Wuhan, China
| | - Yue Song
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
| | | | - Nannan Zhang
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
| | - Jie Ma
- BGI Research, 266555, Qingdao, China
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China
| | | | - Xiaodong Jia
- Joint Laboratory for Translational Medicine Research, Liaocheng People's Hospital, 252000, Liaocheng, Shandong, P.R. China
| | - Kun Wang
- Center for Ecological and Environmental Sciences, Northwestern Polytechnical University, 710072, Xi'an, China
| | - Shunping He
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, 430072, Wuhan, China
| | - Shanshan Liu
- BGI Research, 518083, Shenzhen, China
- MGI Tech, 518083, Shenzhen, China
| | - Ming Ni
- BGI Research, 518083, Shenzhen, China
- MGI Tech, 518083, Shenzhen, China
| | - Xin Liu
- BGI Research, 518083, Shenzhen, China
| | - Xun Xu
- BGI Research, 518083, Shenzhen, China
- Guangdong Provincial Key Laboratory of Genome Read and Write, BGI Research, 518083, Shenzhen, China
| | | | - Jian Wang
- BGI Research, 518083, Shenzhen, China
| | - Inge Seim
- Integrative Biology Laboratory, College of Life Sciences, Nanjing Normal University, Nanjing, China.
- School of Biology and Environmental Science, Queensland University of Technology, Brisbane, 4000, Australia.
| | - Guangyi Fan
- BGI Research, 266555, Qingdao, China.
- Qingdao Key Laboratory of Marine Genomics, BGI Research, 266555, Qingdao, China.
- BGI Research, 518083, Shenzhen, China.
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Tunnah L, Robertson CE, Turko AJ, Wright PA. Acclimation to prolonged aquatic hypercarbia or air enhances hemoglobin‑oxygen affinity in an amphibious fish. Comp Biochem Physiol A Mol Integr Physiol 2020; 252:110848. [PMID: 33217558 DOI: 10.1016/j.cbpa.2020.110848] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2020] [Revised: 11/12/2020] [Accepted: 11/12/2020] [Indexed: 10/23/2022]
Abstract
When the amphibious mangrove rivulus (Kryptolebias marmoratus) leaves water for extended periods, hemoglobin-O2 binding affinity increases. We tested the hypothesis that the change in affinity was a consequence of hemoglobin isoform switching driven by exposure to environments associated with increased internal CO2 levels. We exposed K. marmoratus to either water (control, pH 8.1), air, aquatic hypercarbia (5.1 kPa CO2, pH 6.6-6.8), or aquatic acid (isocarbic control, pH 6.6-6.8), for 7 days, and measured hemoglobin-O2 affinity spectrophotometrically. We found that mangrove rivulus compensated for elevated CO2 and aquatic acid exposure by shifting hemoglobin-O2 affinity back to aquatic (control) levels when measured at an ecologically-relevant high CO2 level that would be experienced in vivo. Using proteomics, we found that the hemoglobin subunits present in the blood did not change between treatments, but air and aquatic acid exposure altered the abundance of cathodic hemoglobin subunits. We therefore conclude that hemoglobin isoform switching is not a primary strategy used by mangrove rivulus to adjust P50 under these conditions. Abundances of other RBC proteins also differed between treatment groups relative to control fish (e.g. Rhesus protein type A, band 3 anion exchanger). Overall, our data indicate that both aquatic hypercarbia and aquatic acidosis create similar changes in hemoglobin-O2 affinity as air exposure. However, the protein-level consequences differ between these groups, indicating that the red blood cell response of mangrove rivulus can be modulated depending on the environmental cue received.
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Affiliation(s)
- Louise Tunnah
- Department of Integrative Biology, University of Guelph, Guelph, Ontario N1G 2W1, Canada.
| | - Cayleih E Robertson
- Department of Integrative Biology, University of Guelph, Guelph, Ontario N1G 2W1, Canada; Department of Biology, McMaster University, Hamilton, Ontario L8S 4K1, Canada.
| | - Andy J Turko
- Department of Integrative Biology, University of Guelph, Guelph, Ontario N1G 2W1, Canada; Department of Biology, McMaster University, Hamilton, Ontario L8S 4K1, Canada; Great Lakes Institute for Environmental Research, University of Windsor, Windsor, ON N9B 3P4, Canada
| | - Patricia A Wright
- Department of Integrative Biology, University of Guelph, Guelph, Ontario N1G 2W1, Canada.
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Characterization of the hemoglobins of the Australian lungfish Neoceratodus forsteri (Krefft). Comp Biochem Physiol A Mol Integr Physiol 2008; 152:162-7. [PMID: 18835585 DOI: 10.1016/j.cbpa.2008.09.015] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2008] [Revised: 09/10/2008] [Accepted: 09/12/2008] [Indexed: 11/23/2022]
Abstract
We examined for the first time the hemoglobin components of the blood of the Australian lungfish, Neoceratodus forsteri and their functional responses to pH and the allosteric modulators adenosine triphosphate (ATP), guanosine triphosphate (GTP), 2,3-bisphosphoglyceric acid (BPG) and inositol hexaphosphate (IHP) at 25 degrees C. Lysates prepared from stripped, unfractionated hemolysate produced sigmoidal oxygen equilibrium curves with high oxygen affinity (oxygen partial pressure required for 50% hemoglobin saturation, p(50)=5.3 mmHg) and a Hill coefficient of 1.9 at pH 7.5. p(50) was 8.3 and 4.5 mmHg at pH 6 and 8, respectively, which corresponded to a modest Bohr coefficient (Delta log p(50)/Delta pH) of -0.13. GTP increased the pH sensitivity of oxygen binding more than ATP, such that the Bohr coefficient was -0.77 in the presence of 2 mmol L(-1) GTP. GTP was the most potent regulator of hemoglobin affinity, with concentrations of 5 mmol L(-1) causing an increase in p(50) from 5 to 19 mm Hg at pH 7.5, while the order of potency of the other phosphates was IHP>ATP>BPG. Three hemoglobin isoforms were present and each contained both alpha and beta chains with distinct molecular weights. Oxygen affinity and pH-dependence of isoforms I and II were essentially identical, while isoform III had a lower affinity and increased pH-dependence. The functional properties of the hemoglobin system of Neoceratodus appeared consistent with an active aquatic breather adapted for periodic hypoxic episodes.
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