Shining a light on species delimitation in the tree genus Engelhardia Leschenault ex Blume (Juglandaceae)

Zhang, Can-Yu; Low, Shook Ling; Nurainas,; Kozlowski, Gregor; Li, Lang; Zhou, Shi-Shun; Tan, Yun‐Hong; Cao, Guan-Long; Zhou, Z.; Meng, Hong-Hu; Li, Jie

doi:10.1016/j.ympev.2020.106918

Cited by 23 publications

(27 citation statements)

References 48 publications

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“…The phylogeny of the Juglandaceae has been inferred based on microsporogenesis, morphology [ 22 , 23 ], fossils [ 24 , 27 , 49 ], molecular markers [ 36 – 38 ], and combined data (morphology, fossils, and molecular data) [ 16 , 27 ]. Several recent studies of phylogeny in the Juglandaceae have included data from plastomes [ 12 , 36 – 39 , 50 – 52 ]. The previously recognized subfamilies (Engelhardioideae and Juglandoideae), tribes (Platycaryeae and Juglandeae) and subtribes (Caryinae and Juglandinae) were all strongly supported [ 27 , 31 , 36 – 39 ].…”

Section: Discussionmentioning

confidence: 99%

“…Several recent studies of phylogeny in the Juglandaceae have included data from plastomes [ 12 , 36 – 39 , 50 – 52 ]. The previously recognized subfamilies (Engelhardioideae and Juglandoideae), tribes (Platycaryeae and Juglandeae) and subtribes (Caryinae and Juglandinae) were all strongly supported [ 27 , 31 , 36 – 39 ]. Our phylogenetic analyses indicated that the Juglandaceae is subdivided into three major clades corresponding to the three subfamilies Rhoipteleoideae, Engelhardioideae, and Juglandoideae [ 17 , 27 , 28 , 30 , 35 , 36 , 51 ] (Fig.…”

Section: Discussionmentioning

confidence: 99%

“…The phylogenetic relationships among and within genera of Juglandaceae are a complex puzzle that has been the subject of numerous studies [ 16 , 24 , 30 , 31 , 35 – 41 ]. Comparative morphology, i.e., primarily interpretation of the floral parts, was used to develop the classically accepted taxonomy and phylogeny of the family [ 21 , 22 , 39 – 45 ].…”

Section: Introductionmentioning

confidence: 99%

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Whole genome based insights into the phylogeny and evolution of the Juglandaceae

Zhou

Ebrahimi

et al. 2021

BMC Ecol Evo

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Background The walnut family (Juglandaceae) contains commercially important woody trees commonly called walnut, wingnut, pecan and hickory. Phylogenetic relationships and diversification within the Juglandaceae are classic and hot scientific topics that have been elucidated by recent fossil, morphological, molecular, and (paleo) environmental data. Further resolution of relationships among and within genera is still needed and can be achieved by analysis of the variation of chloroplast, mtDNA, and nuclear genomes. Results We reconstructed the backbone phylogenetic relationships of Juglandaceae using organelle and nuclear genome data from 27 species. The divergence time of Juglandaceae was estimated to be 78.7 Mya. The major lineages diversified in warm and dry habitats during the mid-Paleocene and early Eocene. The plastid, mitochondrial, and nuclear phylogenetic analyses all revealed three subfamilies, i.e., Juglandoideae, Engelhardioideae, Rhoipteleoideae. Five genera of Juglandoideae were strongly supported. Juglandaceae were estimated to have originated during the late Cretaceous, while Juglandoideae were estimated to have originated during the Paleocene, with evidence for rapid diversification events during several glacial and geological periods. The phylogenetic analyses of organelle sequences and nuclear genome yielded highly supported incongruence positions for J. cinerea, J. hopeiensis, and Platycarya strobilacea. Winged fruit were the ancestral condition in the Juglandoideae, but adaptation to novel dispersal and regeneration regimes after the Cretaceous-Paleogene boundary led to the independent evolution of zoochory among several genera of the Juglandaceae. Conclusions A fully resolved, strongly supported, time-calibrated phylogenetic tree of Juglandaceae can provide an important framework for studying classification, diversification, biogeography, and comparative genomics of plant lineages. Our addition of new, annotated whole chloroplast genomic sequences and identification of their variability informs the study of their evolution in walnuts (Juglandaceae).

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Whole genome based insights into the phylogeny and evolution of the Juglandaceae

Zhou

Ebrahimi

et al. 2021

BMC Ecol Evo

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“…Besides our present study, new and intensive fieldwork is needed to improve the knowledge of the Vietnamese species as well as distribution data on Juglandaceae of Southeastern Asia. This is especially the case in taxonomically complex Engelhardia (Zang et al, 2020) but also in Pterocarya Song et al, 2020b;Zhang et al, 2020).…”

Section: Discussionmentioning

confidence: 94%

Diversity, distribution, and threats of the Juglandaceae in Vietnam

Sâm¹,

Tung²,

Jasiñska³

et al. 2021

Dendrobiology

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Vietnam is one of the main centers of generic diversity for Juglandaceae worldwide. In this study, we present for the first time a province-wide distribution of all 3 subfamilies, 7 genera, and 11 Vietnamese species, and give an update on the habitats of all Vietnamese Juglandaceae species, their uses, and current threats. Juglandaceae are found throughout Vietnam. However, most species occur predominantly in the northern part of the country between 600 and 1200 m. Some taxa range is found extensively from sea level up to 2,500 meters above sea level. According to the IUCN Red List, Rhoiptelea chiliantha, Carya sinensis, and Pterocarya tonkinensis are threatened while Engelhardia spicata, E. serrata, Alfaropsis roxburghiana, Pterocarya stenoptera are classified as least concerned. Carya tonkinensis is threatened locally, and Engelhardia spicata var. colebrookiana and Platycarya strobilacea merit “threatened” designation in Vietnam’s Red Data Book. The most frequent threats are logging, land-use change, and habitat destruction due to artificial wood plantations or road construction. Until now, no conservation measures have been applied for any of the species in Vietnam, although some species occur in national parks. Our study gives an important update on the current diversity and distribution of Juglandaceae in Vietnam.We point out the need for a correct assessment of the threat status of various species on a national and international scale to protect the rarest and most endangered of them. Further research, the use of various forms of protection of individual taxa and/or their habitats, and drawing the attention of an international group of researchers to the urgent need to work together to protect biodiversity in Vietnam hot spots are necessary.

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“…The approaches of applying nSSRs from various employment have been developed in Asteraceae for Chresta [37], Solidago [38], as well as to study the hybridization of two Tithonia species [39]. Application of nSSRs were also used for other plant species such as transferability test in Sanguinaria [40], and genetic structures studies in Salix [41], Euptelea [42], and Engelhardia [43]. The 133 successfully developed polymorphic nucleotide microsatellite markers can be further applied to reveal the genetic diversity, population structure, and to develop effective conservation as well as management strategies for C. chinense.…”

Section: Discussionmentioning

confidence: 99%

Development of Genomic Resources From Crossostephium Chinense (Asteraceae) Based on Genome Skimming Data

Liu

Low

Feng

et al. 2021

Preprint

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Crossostephium chinense is a traditional Chinese medicinal herb and it is often cultivated as an ornamental plant. Previous studies on this species mainly focused on its chemical composition and it was represented rarely and marginally in genetic studies, which limited knowledge about its genetic background, and thus genomic resources remain scarce. To develop both chloroplast and nuclear polymorphic microsatellites for C. chinense, potential microsatellites were screened from genome skimming data of two individuals of C. chinense. Sixty-four and 63 cpSSR markers were identified from two chloroplast genomes of C. chinense. This study performed for the first-ever study on employment of genome skimming data and CandiSSR, consequently a total of 133 polymorphic nSSRs were developed. Ten nSSRs were randomly selected to test their transferability across 35 individuals from three populations of C. chinense, and 20 individuals each of Artemisia stolonifera and A. argyi. Cross-amplifications were successful done for C. chinense, and were partially successful amplified for both Artemisia species. The number of alleles varied from two to nine. The observed heterozygosity and expected heterozygosity per locus ranged from 0.000 to 0.286 and from 0.029 to 0.755, respectively. These genomic resources will be valuable for population genetics and conservation studies in C. chinense and Artemisia.

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Shining a light on species delimitation in the tree genus Engelhardia Leschenault ex Blume (Juglandaceae)

Cited by 23 publications

References 48 publications

Whole genome based insights into the phylogeny and evolution of the Juglandaceae

Whole genome based insights into the phylogeny and evolution of the Juglandaceae

Diversity, distribution, and threats of the Juglandaceae in Vietnam

Development of Genomic Resources From Crossostephium Chinense (Asteraceae) Based on Genome Skimming Data

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