Genomes of the Banyan Tree and Pollinator Wasp Provide Insights into Fig-Wasp Coevolution

Zhang, Xingtan; Wang, Gang; Zhang, Shengcheng; Chen, Shuai; Wang, Yibin; Wen, Ping; Ma, Xiaokai; Shi, Yan; Qi, Ruili; Yang, Yang; Liao, Zhenyang; Lin, Jin-Jia; Lin, Jishan; Xu, Xiuming; Chen, Xuequn; Xu, Xindan; Deng, Fang; Zhao, Lihua; Lee, Yi lun; Wang, Rong; Chen, Xiao‐Yong; Lin, Yi Ru; Zhang, Jisen; Tang, Haibao; Chen, Jin; Ming, Ray

doi:10.1016/j.cell.2020.09.043

Cited by 81 publications

(141 citation statements)

References 96 publications

Supporting

Mentioning

122

Contrasting

Order By: Relevance

“…Our results demonstrate a dramatic contraction across a wide range of gene families in pollinating fig wasps compared to other Hymenoptera, offering support for results from previous studies [ 6 , 33 , 63 , 64 ]. It has been reported that in the genomes of Ceratosolen solmi, Eupristina verticillata , and Wiebesia pumila , many gene families related to chemosensory, detoxification, and innate immune response are reduced [ 6 , 33 , 63 , 64 ].…”

Section: Discussionsupporting

confidence: 90%

“…Recent studies building on the first fig wasp genome [ 6 ] have used an omics approach to greatly enhance our understanding of how selection leaves footprints in expressed genes. For example, reciprocal selection has shaped signal (volatile organic carbon) and receptor (olfactory and gustatory genes) in fig wasps [ 32 , 33 ], while wasps exposed to their host cues actively alter gene regulation of receptors [ 34 ]. Here we took a phylogenetically structured approach and compared baseline gene expression in newly emerged adults among (i) a species complex of five pollinating wasps associated with one host ( Valisia ); (ii) one species associated with five hosts ( Blastophaga sp); (iii) a selection of fig wasps from a single genus spread across several host figs ( Ceratosolen ); (iv) three additional genera sampled for between one to three species; and (iv) the family Agaonidae.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Adaptation of Fig Wasps (Agaodinae) to Their Host Revealed by Large-Scale Transcriptomic Data

Chen

Segar

Chantarasuwan³

et al. 2021

Insects

Self Cite

View full text Add to dashboard Cite

Figs and fig wasps are highly species-specific and comprise a model system for studying co-evolution and co-speciation. The evolutionary relationships and molecular adaptations of fig wasps to their fig hosts are poorly understood, and this is in part due to limited sequence data. Here, we present large-scale transcriptomic datasets of 25 fig wasp species with the aim of uncovering the genetic basis for host specificity. Our phylogenetic results support the monophyly of all genera associated with dioecious figs, and two genera associated with monoecious figs, Eupristina and Platyscapa, were revealed to be close relatives. We identified gene loss and gain, potentially rapidly evolving genes, and genes under positive selection. Potentially functional changes were documented and we hypothesize as to how these may determine host specificity. Overall, our study provides new insights into the evolutionary diversification of fig wasps and contributes to our understanding of adaptation in this group.

show abstract

Section: Discussionsupporting

confidence: 90%

Section: Introductionmentioning

confidence: 99%

Adaptation of Fig Wasps (Agaodinae) to Their Host Revealed by Large-Scale Transcriptomic Data

Chen

Segar

Chantarasuwan³

et al. 2021

Insects

Self Cite

View full text Add to dashboard Cite

show abstract

“…Genes c47131_g1 (FcRD21A, FcRD21B, and FcRD21C) and c8892_g1 (FcRD21E) were repressed in both the inflorescence and receptacle, whereas c56852_g1 (FcSAG12F, FcSAG12G) was only downregulated in the inflorescence, and c39535_g2 (FcRD19D) and c13373_g1 (FcXBCP3A) were only downregulated in the receptacle. The genus has about 700 species, most of them evergreens, including trees, shrubs and climbers growing under different climatic conditions (Flaishman et al, 2008;Zhang et al, 2020). In three sequenced Ficus species genomes, 31, 35 and 34 PLCP genes were identified (F. carica, F. hispida and F. microcarpa, respectively).…”

Section: Expression Pattern Of Plcps In Fig Fruit Treated With Ethephon and Light Deprivationmentioning

confidence: 99%

“…Some syntenic gene pairs were conserved in the three Ficus species, including some SAG12 and RD21 subfamily members, indicating that their expansion occurred before the three species' divergence. A chromosome fusion or fission event occurred between F. microcarpa chr3 and its homologs, chr3 and chr7 of F. carica and F. hispida, respectively (Zhang et al, 2020). FcRD19A, FcXBCP3C, and FcRD21F on chr7 were identified as syntenic genes.…”

Section: Plcps In Ficus Speciesmentioning

confidence: 99%

See 1 more Smart Citation

Papain-Like Cysteine Protease Gene Family in Fig (Ficus carica L.): Genome-Wide Analysis and Expression Patterns

Zhai

Cui²,

Song³

et al. 2021

Front. Plant Sci.

View full text Add to dashboard Cite

The papain-like cysteine proteases (PLCPs) are the most abundant family of cysteine proteases in plants, with essential roles in biotic/abiotic stress responses, growth and senescence. Papain, bromelain and ficin are widely used in food, medicine and other industries. In this study, 31 PLCP genes (FcPCLPs) were identified in the fig (Ficus carica L.) genome by HMM search and manual screening, and assigned to one of nine subfamilies based on gene structure and conserved motifs. SAG12 and RD21 were the largest subfamilies with 10 and 7 members, respectively. The FcPCLPs ranged from 1,128 to 5,075 bp in length, containing 1–10 introns, and the coding sequence ranged from 624 to 1,518 bp, encoding 207–505 amino acids. Subcellular localization analysis indicated that 24, 2, and 5 PLCP proteins were targeted to the lysosome/vacuole, cytoplasm and extracellular matrix, respectively. Promoter (2,000 bp upstream) analysis of FcPLCPs revealed a high number of plant hormone and low temperature response elements. RNA-seq revealed differential expression of 17 FcPLCPs in the inflorescence and receptacle, and RD21 subfamily members were the major PLCPs expressed in the fruit; 16 and 5 FcPLCPs responded significantly to ethylene and light, respectively. Proteome analyses revealed 18 and 5 PLCPs in the fruit cell soluble proteome and fruit latex, respectively. Ficins were the major PLCP in fig fruit, with decreased abundance in inflorescences, but increased abundance in receptacles of commercial-ripe fruit. FcRD21B/C and FcALP1 were aligned as the genes encoding the main ficin isoforms. Our study provides valuable multi-omics information on the FcPLCP family and lays the foundation for further functional studies.

show abstract

Genomic Resequencing Unravels the Genetic Basis of Domestication, Expansion, and Trait Improvement in Morus Atropurpurea

et al. 2023

View full text Add to dashboard Cite

Mulberry is an economically important plant in the sericulture industry and traditional medicine. However, the genetic and evolutionary history of mulberry remains largely unknown. Here, this work presents the chromosome‐level genome assembly of Morus atropurpurea (M. atropurpurea), originating from south China. Population genomic analysis using 425 mulberry accessions reveal that cultivated mulberry is classified into two species, M. atropurpurea and M. alba, which may have originated from two different mulberry progenitors and have independent and parallel domestication in north and south China, respectively. Extensive gene flow is revealed between different mulberry populations, contributing to genetic diversity in modern hybrid cultivars. This work also identifies the genetic architecture of the flowering time and leaf size. In addition, the genomic structure and evolution of sex‐determining regions are identified. This study significantly advances the understanding of the genetic basis and domestication history of mulberry in the north and south, and provides valuable molecular markers of desirable traits for mulberry breeding.

show abstract

Genomes of the Banyan Tree and Pollinator Wasp Provide Insights into Fig-Wasp Coevolution

Cited by 81 publications

References 96 publications

Adaptation of Fig Wasps (Agaodinae) to Their Host Revealed by Large-Scale Transcriptomic Data

Adaptation of Fig Wasps (Agaodinae) to Their Host Revealed by Large-Scale Transcriptomic Data

Papain-Like Cysteine Protease Gene Family in Fig (Ficus carica L.): Genome-Wide Analysis and Expression Patterns

Genomic Resequencing Unravels the Genetic Basis of Domestication, Expansion, and Trait Improvement in Morus Atropurpurea

Contact Info

Product

Resources

About