Vertebrate evolution timeline. Credit: Dr. Guojie Zhang

People traditionally think that lungs and limbs are key innovations that came with the vertebrate transition from water to land. But in fact, the genetic basis of air-breathing and limb movement was already established in our fish ancestors 50 million years earlier. This, according to a recent genome mapping of primitive fish conducted by the University of Copenhagen, among others. The new study changes our understanding of a key milestone in our own evolutionary history.

There is nothing new about humans and all other vertebrates having evolved from fish. The conventional understanding has been that certain fish shimmied landwards roughly 370 million years ago as primitive, lizard-like animals known as tetrapods. According to this understanding, our fish ancestors came out from water to land by converting their fins to limbs and breathing under water to air-breathing.

However, limbs and lungs are not innovations that appeared as recent as once believed. Our common fish that lived 50 million years before the tetrapod first came ashore already carried the genetic codes for -like forms and air breathing needed for landing. These genetic codes are still present in humans and a group of primitive fishes.

This has been demonstrated by recent genomic research conducted by University of Copenhagen and their partners. The new research reports that the evolution of these ancestral genetic codes might have contributed to the vertebrate water-to-land transition, which changes the traditional view of the sequence and timeline of this big evolutionary jump. The study has been published in the scientific journal Cell.

"The water-to-land transition is a major milestone in our evolutionary history. The key to understanding how this transition happened is to reveal when and how the lungs and limbs evolved. We are now able to demonstrate that the genetic basis underlying these occurred much earlier before the first animals came ashore," stated by professor and lead author Guojie Zhang, from Villum Centre for Biodiversity Genomics, at the University of Copenhagen's Department of Biology.

A group of ancient living fishes might hold the key to explain how the tetrapod ultimately could grow limbs and breathe on air. The group of fishes includes the bichir that lives in shallow freshwater habitats in Africa. These fishes differ from most other extant bony fishes by carrying traits that our early fish ancestors might have had over 420 million years ago. And the same traits are also present in for example humans. Through a genomic sequencing the researchers found that the genes needed for the development of lungs and limbs have already appeared in these primitive species.

Our synovial joint evolved from fish ancestor

Using pectoral fins with a locomotor function like limbs, the bichir can move about on land in a similar way to the tetrapod. Researchers have for some years believed that in bichir represent the fins that our early fish ancestors had.

The new genome mapping shows that the joint which connects the socalled metapterygium bone with the radial bones in the pectoral fin in the bichir is homologous to synovial joints in humans—the joints that connect upper arm and forearm bones. The DNA sequence that controls the formation of our synovial joints already existed in the common ancestors of bonefish and is still present in these primitive fishes and in terrestrial vertebrates. At some point, this DNA sequence and the synovial joint was lost in all of the common bony fishes—the socalled teleosts.

"This and the joint allows our bones move freely, which explains why the bichir can move around on land," says Guojie Zhang.

First lungs, then swim bladder

Moreover, the bichir and a few other primitive fishes have a pair of lungs that anatomically resembles ours. The new study reveals that the lungs in both bichir and alligator gar also function in a similar manner and express same set of genes as human lungs.

At the same time, the study demonstrates that the tissue of the lung and swim bladder of most extant fishes are very similar in gene expression, confirming they are homologous organs as predicted by Darwin. But while Darwin suggested that swim bladders converted to lungs, the study suggests it is more likely that swim bladders evolved from lungs. The research suggests that our early bony fish ancestors had primitive functional lungs. Through evolution, one branch of fish preserved the lung functions that are more adapted to air breathing and ultimately led to the evolution of tetrapods. The other branch of fishes modified the lung structure and evolved with swim bladders, leading the evolution of teleosts. The swim bladders allow these fishes to maintain buoyancy and perceive pressure, thus better survive under water.

"The study enlightens us with regards to where our body organs came from and how their functions are decoded in the genome. Thus, some of the functions related to and limbs did not evolve at the time when the water-to-land transition occurred, but are encoded by some ancient gene regulatory mechanisms that were already present in our ancestor far before landing. It is interesting that these genetic codes are still present in these 'living-fossil'' fishes, which offer us the opportunity to trace back the root of these genes," concludes Guojie Zhang.

More information: Xupeng Bi et al. Tracing the genetic footprints of vertebrate landing in non-teleost ray-finned fishes. Cell. February 04, 2021

Journal information: Cell