A visit from the stork brings genomic hope for this endangered species

(Press-News.org) A Visit from the Stork Brings Genomic Hope for this Endangered Species

A new genomic study of the endangered Oriental Stork reveals that the population's genetic health is still surprisingly strong, with high genetic diversity and low levels of inbreeding. This is an uncommon finding in most endangered species populations, which makes it more difficult to rescue those species from extinction. Thus, despite the human-caused decline in the Oriental stork numbers, the findings in this study provide hope for the species' long-term survival, as well as a clear direction to rescue this magnificent bird. Decisive action must be taken to protect its habitats, especially all along its migratory route. 

The wild population of the Oriental Stork (Ciconia boyciana) declined rapidly in the last century. Climate change, forest wildfires, hunting and the expansion of agriculture, industry and other human activities threaten the species, which is listed as endangered by the World Conservation Union. 

In a new study, published in the open science journal GigaScience, researchers collected genomic information on the Oriental Stork and compared the findings with other migratory and non-migratory birds. The work will help to assess the genetic health of the dwindling population, and also gives a glimpse into genes that may be involved in their stunning long-distance navigation behavior of the Oriental Stork: This large wetland wading bird breeds in the Russian Far East and Northeast China and migrates to the Bohai Bay and Poyang Lake in the lower reaches of the Yangtze River in autumn to overwinter. 

Lead by a research team at Northeast Forestry University (China) with collaborators from Harbin, Shenyang, Zhejiang University, and Inner Mongolia, the scientists first assembled a high-quality reference genome of the Oriental Stork and sequenced the genomes of 29 wild Oriental storks and 15 captive individuals. In addition, they also collected whole genome sequencing data from one captive individual in Japan and the United States for comparative analysis.

Dr Tianming Lan, one of the scientists involved in the study, explains why he is so fascinated by this species:  “The Oriental stork is one of the most elegant birds both in flight and on the ground that I have ever seen, and this bird has many fascinating features, including its long distance migration and  'beak clacking' communication. However, this beautiful bird is an endangered species, which stimulated us to carry out this conservation genomic study”.

The genomic data reveal that although the number of Oriental Storks has decreased significantly in the last century, the genetic diversity of wild and captive populations is still high, and the inbreeding level is low. This is counter to many other critically endangered populations,  where low genetic diversity and frequent inbreeding is often observed. That can signal imminent doom for a species, as loss of diversity and inbreeding can increase genetic disorders and reduce immunity and overall health, making already dwindling populations even more vulnerable to extinction.

For the Oriental Stork, the outlook is better, from a genetics perspective at least: The findings indicate that the wild population, with appropriate conservation intervention, may have a high potential for genetic rejuvenation. Dr Lan therefore is quite optimistic: “With the reduction of human interference and damage to their habitats and migration routes, we expect a fast population recovery”. The authors speculate that the migratory lifestyle might help in keeping genetic diversity high within the whole population, as compared to other endangered species that are geographically isolated.

To better understand the migratory behavior of the Oriental Stork, the authors also screened the genomes for signals of genes that might have been favored by natural selection in connection with their long-distance migration. 

“Behaviors are generally complex biological traits, which are usually regulated by many genes and pathways”, Dr Lan says, “and the rapid development of sequencing and the corresponding bioinformatics methods allow us to focus on a batch of genes that may be responsible for its migratory behavior”. To better understand the migratory behavior, the scientists also compared genomes of non-migratory bird species and other migratory birds.

For example, it is known that the long-distance migratory population of peregrine falcons experienced selection on a specific variant of a gene called ADCY8, which in turn regulates memory-related genes. In the new Gigascience study of Oriental Stork genomes, the authors likewise found that ADCY8 was among the genes that experienced selective pressure, hinting further at an  essential role for this gene during the evolution of long-distance migration. 

“Although findings in this study may still be limited to fully explain its migratory behavior, we believe the development of genomics will continue facilitating the in-depth mining of this behavioral trait”, Dr Lan concludes.

The work here hopefully will bring forth renewed goals with specific directives to rescue the Oriental stork through the reduction of human impact on its habitats, especially along its migratory path where the greatest survival pressure is put on this species.

Video interview with the authors: https://youtu.be/M2XQrykt6Y8

Further Reading:

Yang S; Liu Y; Zhao X; Chen J; Li H; Liang H; Fan J; Zhou M; Wang S; Zhang X; Shi M; Han L; Yu M; Lu Y; Liu B; Xu Y; Lan T; Hou Z  Genomic exploration of the endangered oriental stork, Ciconia boyciana, shed lights on migration adaptation and future conservation" GigaScience. 2024 https://doi.org/10.1093/gigascience/giae081

Data Availability:
Yang S; Liu Y; Zhao X; Chen J; Li H; Liang H; Fan J; Zhou M; Wang S; Zhang X; Shi M; Han L; Yu M; Lu Y; Liu B; Xu Y; Lan T; Hou Z  Supporting information for “Genomic exploration of the endangered oriental stork, Ciconia boyciana, shed lights on migration adaptation and future conservation" GigaScience Database. https://doi.org/10.5524/102556

Media contacts:

GigaScience, Editor-in-Chief:

Scott Edmunds, Scott@gigasciencejournal.com, Cell: +852 92490853

Expert:

Dr Tianming Lan, Northeast Forestry University, Harbin
lantianming@nefu.edu.cn 

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About GigaScience Press

GigaScience Press is BGI's Open Access Publishing division, which publishes scientific journals and data. Its publishing projects are carried out with international publishing partners and infrastructure providers, including Oxford University Press and River Valley Technologies. It currently publishes two award-winning data-centric journals: its premier journal GigaScience (launched in 2012), which won the 2018 American Publishers PROSE award for innovation in journal publishing, and its new journal GigaByte (launched 2020), which won the 2022 ALPSP Award for Innovation in Publishing. The press also publishes data, software, and other research objects via its GigaDB.org database. To encourage transparent reporting of scientific research and to enable future access and analyses, it is a requirement of manuscript submission to all GigaScience Press journals that all supporting data and source code be made openly available in GigaDB or in a community approved, publicly available repository. Curating 3D data the GigaDB team also make this data usable by the 3D printing community in Thingiverse (see https://www.youtube.com/watch?v=EHSbeDFN_k8).

About GigaScience

GigaScience is co-published by GigaScience Press and Oxford University Press. Winner of the 2018 PROSE award for Innovation in Journal Publishing (Multidisciplinary), the journal covers research that uses or produces 'big data' from the full spectrum of the biological and biomedical sciences. It also serves as a forum for discussing the difficulties of and unique needs for handling large-scale data from all areas of the life and medical sciences. The journal has a completely novel publication format -- one that integrates manuscript publication with complete data hosting, and analyses tool incorporation. To encourage transparent reporting of scientific research as well as enable future access and analyses, it is a requirement of manuscript submission to GigaScience that all supporting data and source code be made available in the GigaScience database, GigaDB, as well as in publicly available repositories. GigaScience will provide users access to associated online tools and workflows, and has integrated a data analysis platform, maximizing the potential utility and re-use of data.

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