Researchers at the University of Haifa, the Weizmann Institute and the Centre for Genomic Regulation (CRG) have built the first atlas of all of the different types of cells in Stylophora pistillata, a reef-building stony coral native to the Indo-Pacific oceans. Published today in the journal Cell, the study is the first to detect the presence of specialized immune cells in corals.
The findings provide new insights into the molecular biology and evolution of corals and will aid present and future conservation efforts to protect coral reef ecosystems threatened by rising temperatures and ocean acidification.
The map reveals that Stylophora pistillata has 40 different cell types over the three main stages in their life cycle. The researchers found molecular mechanisms responsible for vital biological processes such as the formation of the coral’s skeleton, which serves as the habitat for a large number of marine species. The team also uncovered how corals establish a symbiotic relationship with the photosynthetic algae that reside within their cells.
The researchers were also surprised to discover the presence of specialized immune cells that employ many genes typically associated to immune cell function in vertebrates. It has been previously thought that innate immunity plays a role in preserving the health of algae symbionts, as well as resilience to rising temperatures and acidification, but until now no specialized immune cells have been reported in corals.
According to Dr. Tali Mass, one of the authors of the study and researcher at the University of Haifa, “Coral reefs play a critical role in the ecosystem of oceans and seas, since they provide a habitat for around 25% of animals in the sea and build the largest biogenic structures in the world. The warming of the seawater and rising acidity pose a threat to the future of coral reefs, and accordingly, the genetic sequencing we have completed is extremely important for the survival of coral reefs and the future of the oceans.”
According to Arnau Sebe Pedrós, co-author of the study and Group Leader at the CRG, “Our work systematically defines the molecular biology of coral cells. This cell atlas will help to better understand the responses of corals to raising temperatures and ocean acidification, and may even eventually help design interventions that boost the resilience of the coral reefs we still have left. This work is also a good example of how single-cell genomics technologies are revolutionizing our understanding of animal biodiversity and evolution, bridging the gap between genomes and organisms.”
The researchers built the cell atlas by using a method called single-cell RNA sequencing to measure the gene expression of each individual cell. In research, single-cell RNA sequencing is almost exclusively limited to species that can be grown in laboratory conditions. As stony corals are difficult to grow in lab conditions, researchers in Israel collected the corals at different stages in their life cycle in the Gulf of Eilat and then transported them to the Weizmann Institute and to the CRG in Barcelona for sequencing and analysis. The study is one of the few to carry out single-cell analysis in species sampled from the wild.
Stylophora pistillata multi-stage cell type atlas
(A) S. pistillata adult colony. (B) S. pistillata phylogenetic position. (C) S. pistillata life cycle stages represented in this study. (D) 2D projection of S. pistillata adult single-cells (left) and normalized expression of selected variable genes across adult metacells (fold-change ≥2, allowing only a maximum of 10 genes per metacell). Broad cell types are indicated in the x axis and color bar in the y axis defines cell type in which the gene is specifically expressed. (E) Same as (D) for larva. (F) Same as (D) for primary polyp. (G) Schematic representation of S. pistillata anatomy and tissue architecture with the major sectioning planes used for ISH experiments. (H) RNA ISH on adult tissue sections showing the expression of selected marker genes for epidermis, gastrodermis, digestive filaments, neuron_3 and gland_1. Bar plots shows the expression across metacells of the selected markers (molecules/1,000 unique molecular identifiers [UMIs]). Scale bars, 50 μm. Ap, actinopharynx; Cal, calicodermis; DF, digestive filaments; Ep, epidermis; Ga, gastrodermis; GCn, gastrovascular canal; GCv, gastrovascular cavity; GHC, gastrodermal host cell; Me, mesoglea; MF, mesenterial filaments; Sk, skeleton; Ss, skeleton spine; Sp, spermary; Te, tentacle.
Stony corals are the foundation species for many coral reefs. They begin their life as a swimming larva that disperses and settles as a polyp. Polyps rapidly build a protein-rich matrix that forms a calcium carbonate skeleton, eventually developing into a colonial adult composed of many individual polys. Stony coral colonies are the main habitat for a huge diversity of marine species, which is why coral reefs are considered the rainforests of the sea.
Stony corals live in tropical seas by forming a symbiotic relationship with photosynthetic algae that lives within its cells. The algae provide photosynthetic products to the cell, which in turn provides the algae with carbon. The symbiotic relationship sustains the high energy demands of coral growth and reproduction, including the production of its skeleton.
In the last few decades, coral reefs have declined worldwide. The main drivers of this decline are rising ocean temperatures and acidification, which directly impact coral symbiosis by leading to coral bleaching, where corals expel the algae living in their tissues, as well as affecting skeleton formation through reduced calcification rates.
Source – Center for Genomic Regulation
Availability – The complete dataset can be explored in detail through an interactive database (https://sebe-lab.shinyapps.io/Stylophora_cell_atlas/)