Convergent Degenerated Regulatory Elements Associated with Limb Loss in Limbless Amphibians and Reptiles

	Convergent Degenerated Regulatory Elements Associated with Limb Loss in Limbless Amphibians and Reptiles
	Zhu, CL; Li, SY; Zhang, DZ; Zhang, JJ; Wang, G; Zhou, BT; Zheng, JM; Xu, WJ; Wang, ZF; Gao, XL; Liu, QN; Xue, TF; Zhang, HB; Li, CH; Ge, BM; Liu, YX; Qiu, Q; Zhang, HX; Huang, JH; Tang, BP; Wang, K
	2024
发表期刊	MOL BIOL EVOL
ISSN	0737-4038
卷号	41 期号:11
摘要	Limbs are a defining characteristic of tetrapods, yet numerous taxa, primarily among amphibians and reptiles, have independently lost limbs as an adaptation to new ecological niches. To elucidate the genetic factors contributing to this convergent limb loss, we present a 12 Gb chromosome-level assembly of the Banna caecilian (Ichthyophis bannanicus), a limbless amphibian. Our comparative analysis, which includes the reconstruction of amphibian karyotype evolution, reveals constrained gene length evolution in a subset of developmental genes across 3 large genomes. Investigation of limb development genes uncovered the loss of Grem1 in caecilians and Tulp3 in snakes. Interestingly, caecilians and snakes share a significantly larger number of convergent degenerated conserved noncoding elements than limbless lizards, which have a shorter evolutionary history of limb loss. These convergent degenerated conserved noncoding elements overlap significantly with active genomic regions during mouse limb development and are conserved in limbed species, suggesting their essential role in limb patterning in the tetrapod common ancestor. While most convergent degenerated conserved noncoding elements emerged in the jawed vertebrate ancestor, coinciding with the origin of paired appendage, more recent degenerated conserved noncoding elements also contribute to limb development, as demonstrated through functional experiments. Our study provides novel insights into the regulatory elements associated with limb development and loss, offering an evolutionary perspective on the genetic basis of morphological specialization.
收录类别	SCI
语种	英语
文献类型	期刊论文
条目标识符	http://ir.kiz.ac.cn/handle/152453/14588
专题	科研部门_进化与发育转录组学（吴东东）
推荐引用方式 GB/T 7714	Zhu, CL,Li, SY,Zhang, DZ,et al. Convergent Degenerated Regulatory Elements Associated with Limb Loss in Limbless Amphibians and Reptiles[J]. MOL BIOL EVOL,2024,41(11).
APA	Zhu, CL.,Li, SY.,Zhang, DZ.,Zhang, JJ.,Wang, G.,...&Wang, K.(2024).Convergent Degenerated Regulatory Elements Associated with Limb Loss in Limbless Amphibians and Reptiles.MOL BIOL EVOL,41(11).
MLA	Zhu, CL,et al."Convergent Degenerated Regulatory Elements Associated with Limb Loss in Limbless Amphibians and Reptiles".MOL BIOL EVOL 41.11(2024).

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