Cis-regulatory modes of Ultrabithorax inactivation in butterfly forewings DOI Open Access
Amruta Tendolkar, Anyi Mazo‐Vargas, Luca Livraghi

и другие.

Опубликована: Янв. 10, 2024

Hox gene clusters encode transcription factors that drive regional specialization during animal development: e.g. the factor Ubx is expressed in insect metathoracic (T3) wing appendages and differentiates them from T2 mesothoracic identities. transcriptional regulation requires silencing activities prevent spurious activation regulatory crosstalks wrong tissues, but this has seldom been studied insects other than Drosophila , which shows a derived dislocation into two genomic disjoined Antennapedia ( Antp ) Ultrabithorax ). Here we investigated how restricted to hindwing butterflies, amidst contiguous cluster. By analysing Hi-C ATAC-seq data butterfly Junonia coenia show Topologically Associated Domain (TAD) maintains hindwing-enriched profile of chromatin opening around . This TAD bordered by Boundary Element (BE) separates it region joined activity locus. CRISPR mutational perturbation BE releases ectopic expression forewings, inducing homeotic clones with Further interrogation non-coding RNA encoding regions one putative cis- module within cause rare transformations both directions, indicating presence activating repressing features. We also describe series spontaneous forewing phenotypes obtained Heliconius discuss their possible basis. leveraging extensive found our initial exploration demonstrates existence insulating sequences its forewings.

Язык: Английский

Evolutionary dynamics of genome size and content during the adaptive radiation of Heliconiini butterflies DOI Creative Commons
Francesco Cicconardi, Edoardo Milanetti, Érika C. Pinheiro de Castro

и другие.

Nature Communications, Год журнала: 2023, Номер 14(1)

Опубликована: Сен. 12, 2023

Heliconius butterflies, a speciose genus of Müllerian mimics, represent classic example an adaptive radiation that includes range derived dietary, life history, physiological and neural traits. However, key lineages within the genus, across broader Heliconiini tribe, lack genomic resources, limiting our understanding how neutral processes shaped genome evolution during their radiation. Here, we generate highly contiguous assemblies for nine Heliconiini, 29 additional reference-assembled genomes, improve 10 existing assemblies. Altogether, provide dataset annotated genomes total 63 species, including 58 species tribe. We use this extensive to robust dated heliconiine phylogeny, describe major patterns introgression, explore architecture, basis innovations in enigmatic group, assessment putative regulatory regions at stem. Our work illustrates increased resolution provided by such dense sampling improves power test gene-phenotype hypotheses, precisely characterize evolve.

Язык: Английский

Процитировано

35
Evolutionary origin of genomic structural variations in domestic yaks DOI Creative Commons

Xinfeng Liu,

Wenyu Liu, Johannes A. Lenstra

и другие.

Nature Communications, Год журнала: 2023, Номер 14(1)

Опубликована: Сен. 19, 2023

Yak has been subject to natural selection, human domestication and interspecific introgression during its evolution. However, genetic variants favored by each of these processes have not distinguished previously. We constructed a graph-genome for 47 genomes 7 cross-fertile bovine species. This allowed detection 57,432 high-resolution structural (SVs) within across the species, which were genotyped in 386 individuals. evolutionary origins diverse SVs domestic yaks phylogenetic analyses. further identified 334 genes overlapping with that bore potential signals selection from wild yaks, plus an additional 686 introgressed cattle. Nearly 90% Introgression SV spanning KIT gene triggered breeding white yaks. validated significant association selected stratified expression, contributes phenotypic variations. Our results highlight different contribute diversity

Язык: Английский

Процитировано

29
Adaptive introgression of a visual preference gene DOI
Matteo Rossi, Alexander E. Hausmann, Pepe Alcamí

и другие.

Science, Год журнала: 2024, Номер 383(6689), С. 1368 - 1373

Опубликована: Март 21, 2024

Visual preferences are important drivers of mate choice and sexual selection, but little is known how they evolve at the genetic level. In this study, we took advantage diversity bright warning patterns displayed by Heliconius butterflies, which also used during choice. Combining behavioral, population genomic, expression analyses, show that two species have evolved same for red exchanging material through hybridization. Neural regucalcin1 correlates with visual preference across populations, disruption CRISPR-Cas9 impairs courtship toward conspecific females, providing a direct link between gene behavior. Our results support role hybridization behavioral evolution visually guided behaviors contributing to adaptation speciation encoded within genome.

Язык: Английский

Процитировано

15
Genetic basis of an adaptive polymorphism controlling butterfly silver iridescence DOI Creative Commons
Luca Livraghi, Joseph J. Hanly, Ling S. Loh

и другие.

Current Biology, Год журнала: 2025, Номер unknown

Опубликована: Апрель 1, 2025

Identifying the genes and mutations that drive phenotypic variation which are subject to selection is crucial for understanding evolutionary processes. Mormon Fritillary butterflies (Speyeria mormonia) exhibit a striking wing color polymorphism throughout their range: typical morphs bear silver spots on ventral surfaces can co-occur with unsilvered displaying dull coloration.1 Through genome-wide association studies in two polymorphic populations, we fine-map this difference silvering 3' region of transcription factor gene optix. The expression optix confined regions surround spots, these patterns transformed identity upon RNA interference (RNAi) knockdown, implicating as repressor scales butterfly. We show haplotype shows signatures recent selective sweeps allele shared an population Speyeria hydaspe, suggesting introgressions may facilitate exchange variants adaptive potential across species. Remarkably, findings parallel role allelic sharing cis-regulatory modulation shaping aposematic red Heliconius butterflies,2,3,4,5,6,7 lineage separated from 45 million years ago.8 genetic basis thus be more predictable than often presumed, even traits appear divergent large distances.

Язык: Английский

Процитировано

1
Multi-omics analyzes of Rosa gigantea illuminate tea scent biosynthesis and release mechanisms DOI Creative Commons
Lijun Zhou,

Sihui Wu,

Yunyi Chen

и другие.

Nature Communications, Год журнала: 2024, Номер 15(1)

Опубликована: Сен. 30, 2024

Rose is an important ornamental crop cultivated globally for perfume production. However, our understanding of the mechanisms underlying scent production and molecular breeding fragrance hindered by lack a reference genome tea roses. We present first complete telomere-to-telomere (T2T) Rosa gigantea, with high quality (QV > 60), including detailed characterization structural features repetitive regions. The expansion genes associated phenylpropanoid biosynthesis may account unique scent. uncover release rhythm aromatic volatile organic compounds their gene regulatory networks through comparative genomics time-ordered co-expression networks. Analyzes eugenol homologs demonstrate how plants attract pollinators using specialized phenylpropanoids in specific tissues. This study highlights conservation utilization genetic diversity from wild endangered species multi-omics approaches, providing scientific foundation enhancing rose via de novo domestication.

Язык: Английский

Процитировано

8
A long noncoding RNA at the cortex locus controls adaptive coloration in butterflies DOI Creative Commons
Luca Livraghi, Joseph J. Hanly,

Elizabeth Evans

и другие.

Proceedings of the National Academy of Sciences, Год журнала: 2024, Номер 121(36)

Опубликована: Авг. 30, 2024

Evolutionary variation in the wing pigmentation of butterflies and moths offers striking examples adaptation by crypsis mimicry. The

Язык: Английский

Процитировано

7
A long non-coding RNA at thecortexlocus controls adaptive colouration in butterflies DOI Creative Commons
Luca Livraghi, Joseph J. Hanly,

Elizabeth Evans

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Фев. 12, 2024

Abstract Evolutionary variation in the wing pigmentation of butterflies and moths offers striking examples adaptation by crypsis mimicry. The cortex locus has been independently mapped as controlling colour polymorphisms 14 lepidopteran species, suggesting it acts a genomic hotspot for diversification patterns, but functional validation through protein-coding knockouts proven difficult to obtain. Our study unveils role novel long non-coding RNA (lncRNA) which we name ivory , transcribed from locus, modulating patterning butterflies. Strikingly, expression prefigures most melanic patterns during pupal development, an early developmental specifying scale identity. To test this, generated CRISPR mosaic knock-outs five nymphalid butterfly species show that mutagenesis yields transformations dark pigmented scales into white or light-coloured scales. Genotyping Vanessa cardui germline mutants associates these phenotypes small on-target deletions at conserved first exon . In contrast, mutant with confirmed null alleles lack any phenotype, exclude this adjacent gene. Overall, results lncRNA master switch pattern specification, played key roles adaptive Significance statement Deciphering genetic underpinnings is fundamental comprehensive understanding evolutionary processes. Long RNAs (lncRNAs) represent emerging category modulators within genome, yet they have overlooked source phenotypic diversity. study, unveil pivotal orchestrating transitions between light development. Remarkably, gene nested region known control multiple cases moths, including iconic natural selection. These findings highlight significant influence lncRNAs regulation, also underscore their potential players process itself.

Язык: Английский

Процитировано

6
Signatures of adaptation and purifying selection in highland populations of Dasiphora fruticosa DOI Creative Commons
Fu‐Sheng Yang, Min Liu, Xing Guo

и другие.

Molecular Biology and Evolution, Год журнала: 2024, Номер 41(6)

Опубликована: Май 20, 2024

High mountains harbor a considerable proportion of biodiversity, but we know little about how diverse plants adapt to the harsh environment. Here finished high-quality genome assembly for Dasiphora fruticosa, an ecologically important plant distributed in Qinghai-Tibetan Plateau and lowland Northern Hemisphere, resequenced 592 natural individuals address this horticulture adapts highland. Demographic analysis revealed D. fruticosa underwent bottleneck after Naynayxungla Glaciation. Selective sweep two pairs highland populations identified 63 shared genes related cell wall organization or biogenesis, cellular component organization, dwarfism, suggesting parallel adaptation habitats. Most importantly, found that stronger purging estimated genetic load due inbreeding apparently contributed their highest mountain. Our results could tolerate extreme plateau, which provide potential insights species conservation crop breeding.

Язык: Английский

Процитировано

5
A distinct foliar pigmentation pattern formed by activator-repressor gradients upstream of an anthocyanin-activating R2R3-MYB DOI Creative Commons
Amy M. LaFountain, Qiaoshan Lin, Hayley McMahon

и другие.

Cell Reports, Год журнала: 2024, Номер 43(7), С. 114444 - 114444

Опубликована: Июль 1, 2024

The emergence of novel traits is often preceded by a potentiation phase, when all the genetic components necessary for producing trait are assembled. However, elucidating these potentiating factors challenging. We have previously shown that an anthocyanin-activating R2R3-MYB, STRIPY, triggers distinct foliar pigmentation pattern in monkeyflower Mimulus verbenaceus. Here, using forward and reverse genetics approaches, we identify three STRIPY expression: MvHY5, master regulator light signaling activates expressed throughout leaf, two leaf developmental regulators, MvALOG1 MvTCP5, opposing gradients along proximodistal axis negatively regulate STRIPY. These results provide strong empirical evidence phenotypic novelties can be potentiated through incorporation into preexisting regulatory networks highlight importance positional information patterning stripe.

Язык: Английский

Процитировано

4
Understanding developmental system drift DOI Creative Commons

Áine McColgan,

James DiFrisco

Development, Год журнала: 2024, Номер 151(20)

Опубликована: Окт. 15, 2024

Developmental system drift (DSD) occurs when the genetic basis for homologous traits diverges over time despite conservation of phenotype. In this Review, we examine key ideas, evidence and open problems arising from studies DSD. Recent work suggests that DSD may be pervasive, having been detected across a range different organisms developmental processes. Although research remains heavily reliant on model organisms, extrapolation findings to non-model can error-prone if lineages have undergone We suggest how existing data modelling approaches used detect estimate its frequency. More direct study DSD, propose, inform null hypotheses much divergence expect phylogenetic distance, while also contributing principles gene regulatory evolution.

Язык: Английский

Процитировано

4