- Genome-wide analyses of the relict gull ( Larus relictus. - relictus , one of the few known reference genomes in genus Larus . - The size of the final assembled genome was 1.21 Gb, with a contig N50 of 8.11 Mb. - The genome contained 92.52 Mb of repeat sequence, accounting for 7.63% of the assembly. - main wintering place is situated on the west coast of the Bohai Sea [3]. - The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. - To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.. - The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.. - Approximately of the cleand Illumina reads could be mapped to the contigs, with . - In addition of the 4915 highly conserved Aves orthologues from BUSCO v3.0.2 were identified in the assembly (Table S7). - A total of predicted genes in the L.. - A total of 221 pseudogenes were identi- fied in the L. - A total of 92.52 Mb of repeat sequence was annotated, composing 7.63% of the total genome length. - We found that class I transposable elements (TEs) (RNA transpo- sons or retrotransposons) occupied ~approximately 8.22% of the genome assembly. - relictus genome also contained class II TEs (DNA transposons), which occupied approximately 0.28% of the genome.. - Comparison of the L. - relictus was genetically most related to another member of the order Laridae, L.. - In addition, we also identified the biochemical pathways of the PSGs. - KEGG annotation of the PSGs suggested that the path- way of RNA transport had the highest ratio, followed by spliceosome. - The GC content of the L. - Genomes in different vertebrate lineages can have very different contents in repeate elements: the genomes of the primates contains more repeat elements (45–50% of the genome) than the genomes of mouse and rat (39–40%) and dog . - The genus Larus was split with Rissa tridactyla at approximately 20.51 Mya, which was close to that divergence time of the genus between Larus and Rissa. - from other species were estimated at approximately 69.81 Mya, which is in agreement with the divergence time of the Charadriiformes as a whole (79–102 Mya) [27].. - The size of the final assembled genome was 1.21 Gb, with a contig N50 of 8.11 Mb and Mb of repeat sequence, and 18,454 genes were predicted with of these genes annotated.. - relictus which is one of the few known reference genomes in genus Larus, will be effectively to investigate the evolutionary and molecular mechanisms of some significant processes in this species.. - Xiao, and the specimen (vou- cher number YG01) was deposited in the animal specimens museum of the Shaanxi Institute of Zoology, Xi’an, Shaanxi Province, China. - Our team is a wildlife protection agency under the Shaanxi Academy of Sci- ences (China), cooperating and working with the author- ity department on Hongjian Nur for nearly 20 years, mainly devoted to the protection of the relict gull. - Pilon v1.22 [33] software was used to correct the assembly results using HiSeq data. - To assess the completeness of the L.. - PASA v2.0.2 [45] was used to predict unigene sequences assembled based on the whole transcriptome data without references. - Software including LTR-FINDERv1.05 [46], MITE- Hunter v RepeatScout v1.05 [48] and PILE R-DF v2.4 [49] was used for prediction of repetitive se- quences in the L. - To assign gene functions in the L. - Orthofinder v2.4 (diamond, e = 0.001) was used to cluster gene families [59]. - Divergence times and ages of fossil records were de- rived from TimeTree (https://www.timetree.org/) and applied as the time control, i.e Mya of P.. - The consistency of the two repeated calculations was 1, and iteration parameters of a Markov chain: -burnin sampfreq 30 -nsample . - MCMCTreeR v1.1 was used for graphical presentation.. - included single-copy genes (F3x4 model of codon fre- quencies) was used to detect positively selected genes in the clade containing L. - The online version contains supplementary material available at https://doi.. - org/10.1186/s z.. - Repeat elements in the genome.. - QXW collected the sample, and assisted in the programming. - The authors declare that the data supporting the finding of this study are available in the article and its supplementary information files. - The raw sequencing reads data were deposited to NCBI as part of the BioProject PRJNA314730 via Sequence Read Archive (SRA). - Our team is a wildlife protection agency under the Shaanxi Academy of Sciences (China), cooperating and working with the authority department on Hongjian Nur for nearly 20 years, mainly devoted to the protection of the relict gull. - Samples collection are performed in the daily conservation working following the institutional guidelines of the Nature Reserve Authority of Hongjian Nur. - Preliminary study of genetic diversity and population structure of the relict Gull Larus relictus (Charadriiformes Laridae) using mitochondrial and nuclear genes.. - 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