Research Article |
Corresponding author: Le Min Choo ( choolemin@gmail.com ) Academic editor: Patrick Herendeen
© 2022 Le Min Choo, Adrian Hock Beng Loo, Wee Foong Ang, Kenneth Boon Hwee Er.
This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Citation:
Choo LM, Loo AHB, Ang WF, Er KBH (2022) A natural hybrid of Sindora (Fabaceae, Detarioideae) from Singapore. PhytoKeys 190: 87-102. https://doi.org/10.3897/phytokeys.190.79185
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Sindora × changiensis L.M.Choo, Loo, W.F.Ang & K.Er is a new hybrid from the subfamily Detarioideae in Fabaceae. This is the first reported instance of natural hybridisation in Sindora. Based on population genetics analyses using ddRAD and morphological observations, this taxon represents a fertile hybrid between Sindora coriacea and Sindora echinocalyx. This new hybrid is so far only known to occur naturally from Changi at the north-eastern coast of Singapore. It has pods that are sparsely spiny. This is intermediate between the smooth, non-spiny pods of S. coriacea, and the densely spiny pods of S. echinocalyx. The calyx is smooth and unarmed, resembling S. coriacea. Last but not least, the ovary is entirely pubescent, different from S. coriacea and S. echinocalyx. The ovary of S. coriacea has a glabrous patch in the middle, while that of S. echinocalyx has minute spines protruding from the dense pubescence. A taxonomic description and an updated key to the Sindora of Singapore and Peninsular Malaysia are also provided.
Caesalpinioideae, Changi, ddRAD, new hybrid, Sindora coriacea, Sindora echinocalyx
Sindora Miq. is a genus of the legume family (Fabaceae: Detarioideae) and consists of 20–22 species. It has a paleotropical distribution, with one species from West Central Africa, and the rest from Asia, which are distributed from Southern China to Southeast Asia, and to as far west as the Philippines (
Previous work on Sindora in Singapore and Peninsular Malaysia reported five native species to the region, i.e. Sindora coriacea (Baker) Prain, Sindora echinocalyx Prain, Sindora siamensis Teijsm. ex Miq., Sindora velutina Baker, Sindora wallichii Benth. (
From a combination of population genetics and morphological evidence, we found that this particular tree represents a natural hybrid between Sindora coriacea and Sindora echinocalyx, and is the first recorded instance of hybridisation in Sindora. We describe this new hybrid as Sindora × changiensis L.M.Choo, Loo, W.F.Ang & K.Er, and further explain the characteristics that distinguish this new hybrid from its parent species.
Double-digest RAD-sequencing (ddRAD) was carried out to investigate the hybrid origin of Sindora × changiensis. Of the four native species of Sindora in Singapore, S. echinocalyx, one of the likely parents as an individual of S. echinocalyx, was formerly collected from Changi, Singapore in 1893 as a herbarium specimen, so this species was known to exist in the area. S. coriacea was selected as the next most likely parent because of its smooth and spineless pods, as the hybrid had sparsely spiny pods and other characteristics which were intermediate between, or a mix between, these two species (see Results for more details). The other two native species, S. velutina and S. wallichii, were unlikely to have been the other parent because they both have spiny pods, and would not have resulted in the sparsely spiny pods of the hybrid if they had hybridised with S. echinocalyx.
A total of 14 individuals from Singapore were sampled and sequenced, consisting of six S. coriacea individuals, four S. echinocalyx individuals and three S. × changiensis individuals (the mature tree and two other seedlings from the tree). Leaf material from each tree was silica-dried and the resulting herbarium specimens were deposited in SING. Details of the specimens used are available in Table
Details of 14 specimens sequenced in the population genetics analysis. (BTNR = Bukit Timah Nature Reserve, CCNR = Central Catchment Nature Reserve).
Sample | Species | Collector | Voucher | Locality | Notes |
---|---|---|---|---|---|
Sind002 | Sindora coriacea | Choo, L.M. & Ngo, K.M. | SING2019-840 | BTNR | Wild |
Sind063 | Sindora coriacea | Ng, X.Y. | SING2021-396 | CCNR | Wild |
Sind064 | Sindora coriacea | Niissalo, M.A. & Choo, L.M. | SING2021-599 | CCNR | Wild |
Sind065 | Sindora coriacea | Niissalo, M.A. & Choo, L.M. | SING2021-600 | CCNR | Wild |
Sind066 | Sindora coriacea | Niissalo, M.A. & Choo, L.M. | SING2021-601 | CCNR | Wild |
Sind067 | Sindora coriacea | Niissalo, M.A. & Choo, L.M. | SING2021-602 | CCNR | Wild |
Sind068 | Sindora coriacea | Niissalo, M.A. & Choo, L.M. | SING2021-603 | CCNR | Wild |
Sind006 | Sindora × changiensis | Choo, L.M. | SING2020-649 | Changi | Seedling of Sind019 |
Sind017 | Sindora × changiensis | Choo, L.M. | SING2020-650 | Changi | Seedling of Sind019 |
Sind019 | Sindora × changiensis | Choo, L.M. et al. | SING2021-265 | Changi | Wild, Mature tree |
Sind010 | Sindora echinocalyx | Choo, L.M. et al. | SING2020-1212 | Changi | Cultivated |
Sind011 | Sindora echinocalyx | Choo, L.M. et al. | SING2020-1213 | Changi | Cultivated |
Sind020 | Sindora echinocalyx | Choo, L.M. et al. | SING2021-266 | Changi | Cultivated |
Sind021 | Sindora echinocalyx | Choo, L.M. et al. | SING2021-267 | Changi | Cultivated |
Genomic DNA extraction was done using the CTAB method (
The pooled libraries were sequenced by NovogeneAIT Genomics (Singapore) using Illumina NovaSeq. Sequences were demultiplexed using the process_radtags function in STACKS v1.37 (
To visualise the relationships between Sindora coriacea, S. echinocalyx and S. × changiensis, a neighbour-net plot with uncorrected p-distances was made using the Neighbour-Net function in SPLITSTREE v4.17.1 (
Morphological observations of the hybrid Sindora × changiensis were made using both freshly collected and dried herbarium specimens in SING. The traits of S. coriacea and S. echinocalyx were obtained from the accounts of both species in their recent treatment in
The Neighbour-Net analysis in SPLITSTREE (Fig.
Morphological observations of the Sindora × changiensis along with S. coriacea and S. echinocalyx showed that S. × changiensis had characters, which were both intermediate between the two parents and also a mix of characters from either parent. The pods of S. × changiensis are sparsely spiny, which is intermediate between the non-spiny pods of S. coriacea, and the densely spiny pods of S. echinocalyx. The calyx of S. × changiensis is smooth and unarmed, which resembles S. coriacea. The ovary of S. × changiensis is densely villous all over and without spines on the surface, which is different from both S. coriacea and S. echinocalyx, where the ovaries are densely pubescent but with a glabrous patch in the centre, and densely villous all over but with small, blunt spines visible under the hairs, respectively. These differences are further detailed in Table
Differences between Sindora × changiensis and its parent species S. coriacea and S. echinocalyx.
Character | Sindora coriacea | Sindora × changiensis | Sindora echinocalyx |
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Stipules | Caducous, c. 4 mm long | Caducous, 1.2–1.4 cm long | Subpersistent, 0.8–1.8 cm long |
Leaflet shape | Elliptic to ovate to broadly falcate, asymmetric with the midrib curved | Elliptic, slightly asymmetric with midrib slightly curved | Elliptic to obovate, slightly asymmetrical at the base, midrib generally straight |
Leaflet apex | Bluntly acute to acuminate, rarely obtuse and sometimes slightly emarginate at the very tip | Acuminate to obtuse, with a very slight emarginate indent at the very tip | Apex rounded to obtuse and slightly emarginate at the very tip |
Sepal size | 4–5(–6.8) × 1.5–3 mm | 8–9.3 × 3–5.2 mm | 6–9 × 1.5–4.7 mm |
Calyx surface | Unarmed | Unarmed | Armed all over with long, soft spines that are brittle when dry, spines up to 2 mm long. |
Ovary surface | Densely pubescent around the edges and glabrous in the centre, surface unarmed. | Densely covered all over with long silky villous hairs, except in three strips on the surface where the hairs are less dense, spines not seen. | Densely villous, surface armed with small, blunt, spines that are visible under the hairs of the ovary |
Ovary size | 2.5–3.2 × 1.5–2 mm | 3.5–4.5 ×2.8–3 mm | 3.5–4 × 3–3.2 mm |
Ovary stipe length | 1.5–1.7 mm | 1.8–2.2 mm | 2.2–2.3 mm |
Style length | 9.5–10.5 mm | 12–13.5 mm | 9–12 mm |
Pod surface | Unarmed or with few slightly raised warts | Sparsely armed with c. 20 or fewer slender spines which sometimes exude a clear resin | Densely armed with upright, regularly spaced spines, often with tipped with beads of dried resin at the ends of the spines |
Aril | Aril semi-circular or trapezoid, chestnut-brown, 1.4–2 × 1.3–1.5 × 0.9–1 cm, | Aril trapezoid, yellowish brown to chestnut brown, 2.2–2.6 × 1.5–1.7 × 0.8–1 cm; | Aril narrowly trapezoid or rectangular, 1.3–1.5 × 1.3–1.8 × 0.6–0.8 cm, |
Seed | 1.9–2.5 × 1.4–1.8 × 0.8–0.1 cm, horizontal cracks on surface very faint and scarcely visible, chestnut brown in colour but becoming a darker shade of brown towards the centre of the seed. | 2–2.5 × 1.7–1.9 × 0.8–0.9 cm, horizontal cracks on surface distinctly visible, uniformly black in colour. | 1.9–2.2 × 1.1–1.9 × 0.6–0.9 cm, horizontal cracks on surface very faint and scarcely visible, uniformly black in colour. |
= Sindora coriacea (Baker) Prain × Sindora echinocalyx Prain.
Pod intermediate in character between the two parents, with a smooth surface like that of S. coriacea coupled with sparsely-set and fine spines which are much less dense than in S. echinocalyx. Flower calyx entirely smooth and without prickles, resembling S. coriacea. Ovary lacking the hairless patch in the centre, which is the case for S. coriacea. Instead, it is entirely pubescent with fine adpressed hairs, but without the minute protuberances or prickles that are seen in S. echinocalyx.
Singapore: Changi: 503 Cranwell Road, 1°23.335'N, 103°58.618'E, 6 May 2021, Choo et al., SING2021-265 (holotype SING, isotypes (BKF, K, KEP, L)).
Tree up to 27 m tall, dbh up to 1.5 m, bole columnar, with slightly raised rings around the girth, not buttressed, bark grey to blackish, slightly cracked or flaky. Stipules early caducous, only present in young parts, semicircular, 1.2–1.4 cm long. Leaves compound, paripinnate, 3–4 jugate, rachis puberulous, 3.5–5.6 cm long; petiole 2–3 cm long; petiolules 4–5 mm long, puberulous, grooved, greenish brown when fresh but drying dark brown to black. Leaflets opposite, coriaceous, elliptic, slightly asymmetric with midrib slightly curved, 3.5–6.8 × 2.3–3.5 cm, increasing in size up the rachis, base rounded to obtuse, apex acuminate to obtuse, with a very slight emarginate indent at the very tip; upper surface slightly glossy when fresh, but reticulations become conspicuous when dry, entirely glabrous, midrib flat to slightly sunken; lower surface glaucous, puberulous with tiny short golden hairs, midrib raised and also puberulous; thickened marginal vein either glabrous or minutely puberulous; reticulations clear and raised on both the upper and lower surfaces; one gland present on the tip of the midrib on the lower surface, another present on the thickened marginal vein close to the base of the leaflet. Inflorescence paniculate, both terminal and axillary, but mostly concentrated on the crown, growing from old stems where inflorescence branches from the previous year have been shed, flowering rachises long and stout, measuring 11.5–25 × 5–8 cm, side branches straight but bearing scars where the flowers are attached, branches flexible but held erect in fresh specimens. Both flowering rachis and branches completely pubescent with short golden adpressed to upright hairs. Bracts not seen, caducous; bracteoles ovate, c. 2.5 × 1.3 mm, pubescent on both surfaces, caducous, only seen in inflorescences where the buds are still small and developing. Pedicels 4.5–6 mm long, pubescent, receptacle short, 1–1.5 mm long; buds obovoid to ellipsoid, suture lines of the sepals becoming evident as the bud matures, measuring 6–7.5 × 4.5–5.5 mm when mature just before anthesis. Flowers strongly zygomorphic. Sepals 4, unequal, lanceolate to elliptic, 8.0–9.3 × 3.0–5.2 mm, outer surface pubescent with small golden hairs, unarmed, inner surface densely covered with long golden brown tightly adpressed hairs. Petal 1, not exserted but nestled within the largest sepal during anthesis, rolled up and containing a drop of sweet floral-scented nectar, c. 7.5 × 2.2 mm when rolled up, top of petal with a well-defined hood fringed with long villous hairs which narrows off with the lower half of the petal with inrolled sides forming a closed tube; outer surface glabrous at the top and down the middle, densely pubescent at the sides and the lower half of the petal; inner surface glabrous; margins villous, colour pink tinged with green at the tip. Stamens 10, diadelphous, united basal portion of the stamens 2.5–3 mm long; two largest filaments 12–15 mm long, the seven in the middle of the bundle 6–7 mm long; two largest anthers elliptic, 2.5–2.7 × 1.7–1.9 mm, the others smaller and heart shaped, 1.6–2 × 1–1.4 mm, all nine mentioned here with visible pollen; final stamen on the other side of the flower is a staminode, 6–7.5 mm long but without a fertile anther. Ovary rhomboidal, densely covered all over with long silky villous hairs, except in three strips on the surface where the hairs are less dense; 3.5–4.5 × 2.8–3 mm, stipe 1.8–2.2 mm long, style glabrous except for the base where it has villous hairs like the rest of the ovary, 12–13.5 mm long, pale yellow green tinged with pink at the base, stigma capitate with small sticky papillate protuberances, c. 0.6 mm diameter. Pod a flattened, elliptic, rhomboidal or ovate two-valved dehiscent pod, surface sparsely armed with c. 20 or fewer slender spines that sometimes exude a clear resin; surface beneath the spines smooth and puberulous with short golden hairs, 7–8 × 6–6.5 cm, stipe 8–9 mm, beak 9–10 mm. Seed 1, aril trapezoid, yellowish brown to chestnut brown, 2.2–2.6 × 1.5–1.7 × 0.8–11 cm; seed 2–2.5 × 1.7–1.9 × 0.8–0.9 cm, surface smooth with fine horizontal cracks, black in colour.
The hybrid is likely endemic to Singapore. It is only known to occur naturally in Changi, which is at the north-east coast of Singapore, although the offspring of the tree has been propagated and planted elsewhere in Singapore as roadside trees.
Comparisons of leaf and flower characters between Sindora × changiensis and its parent species. A, B, C leaves of (A) S. coriacea, (B) S. × changiensis and (C) S. echinocalyx respectively D, E, F flowers of (D) S. coriacea, (E) S. × changiensis and (F) S. echinocalyx respectively, showing the unarmed calyces of S. coriacea, S. × changiensis, and the spiny calyx of S. echinocalyx G, H, I Ovaries of (G) S. coriacea, (H) S. × changiensis and (I) S. echinocalyx respectively, showing the glabrous patch in the centre for S. coriacea; the densely pubescent ovary for S. × changiensis except for the three stripes across the width; and the densely pubescent ovary for S. echinocalyx, with tiny protuberances visible on the surface, which will later on develop into the spines on the fruit pods. Scale bars: 1 cm (A, B, C); 1 mm (D, E, F, G, H, I). (Photos: L.M. Choo).
Latin, -ensis = from, meaning “from Changi”.
The species is part of the remnant vegetation of tropical lowland forest that was once present in the area, before it was cleared.
Comparisons of pod and seed characters between Sindora × changiensis and its parent species A, B, C pods of (A) S. coriacea, (B) S. × changiensis and (C) S. echinocalyx respectively, showing the unarmed pod of S. coriacea, the sparsely spiny pod of Sindora × changiensis, and the densely spiny pod of S. echinocalyx D, E, F seeds of (D) S. coriacea, (E) S. × changiensis and (F) S. echinocalyx respectively. Scale bars: 1 cm (A, B, C, D, E, F). (Photos: L.M. Choo).
Flowers from April to May, and fruits in August.
Only a single tree of S. × changiensis is known to occur from the wild in Singapore, although the offspring of this tree have been planted elsewhere in Singapore as roadside trees.
In Sindora, the leaves of seedlings, saplings and water shoots of mature trees often have a morphology different from that of the mature leaves from the crown of the tree. The leaves of Sindora seedlings, saplings and water shoots are usually larger in size and are pubescent on the underside and along the leaflet margins, and the shape of the leaf and the leaf apex may differ somewhat from the mature leaves (
1 | Leaflets broadly elliptic, apex strongly emarginate, midrib on the lower surface with a gland located 1–3 mm away from the tip of the leaflet; calyx warty with small spines at the apex | S. siamensis |
– | Leaflets falcate, elliptic, obovate or lanceolate, apex if emarginate only very slightly notched at the tip, midrib on the lower surface with a gland at the very tip of the leaflet; calyx never warty, either unarmed or armed with spines | 2 |
2 | Lower surface of leaflets densely pubescent or tomentose, distinctly velvety or rough to touch; leaves 4–6-jugate; rachis of young leaflets, inflorescence and stipe of pods densely tomentose with reddish brown hairs | S. velutina |
– | Lower surface of leaflets puberulous to glabrescent to glabrous, may be slightly rough like fine sandpaper but never velvety; leaves (2–)3–4-jugate; rachis of young leaflets puberulous to glabrous, inflorescence or stipe of pods pubescent to tomentose with golden brown hairs | 3 |
3 | Lower surface of leaflets glabrous or only sparsely puberulous at the base in mature leaflets except for the midrib which is usually puberulous; pods unarmed | S. coriacea |
– | Lower surface of leaflets entirely puberulous with small, thin adpressed or strigose hairs in mature leaflets; pods armed or sparsely armed | 4 |
4 | Calyx entirely smooth and without spines; pods sparsely armed, usually with c. 20 spines or much less on each surface | S. × changiensis |
– | Calyx armed, either only on the upper half or on the entire surface; pods armed with more than 20 spines on each surface | 5 |
5 | Leaflets without raised reticulations above, upper surface smooth and glossy and shining; calyx armed only on the upper half or on the very tip of the bud, with small spines less than 1 mm long | S. wallichii |
– | Leaflets with raised reticulations above, upper surface not glossy; calyx armed all over the exterior of the bud with long soft spines which are brittle when dry, spines up to 2 mm | S. echinocalyx |
Sindora × changiensis is the first recorded instance of natural hybridisation in the genus Sindora, and is currently known to be endemic to Singapore. Both of the parent species, S. coriacea and S. echinocalyx, are native to Singapore. S. echinocalyx is known to occur in coastal hills and heath forests in Peninsular Malaysia (
Aerial photo of the Changi area from various years showing Sindora × changiensis circled in yellow A aerial photo on 17 Feb 1946, which is the earliest archival aerial photo of the Changi area, showing the tree as part of the rainforest remnant B aerial photo on 14 Jul 1950, showing the erection of the Cranwell bungalows to the left and right of the tree C aerial photo on 5 Mar 1963 D present day aerial photo showing the tree. (Images: A–C aerial photographs by the British Royal Air Force between 1940 to 1970s, from a collection held by the National Archives of Singapore. Crown copyright, reproduced in part D imagery 2021 Maxar Technologies, Map data 2021 Google).
This hybrid individual was observed to have been pollinated by the giant honey bee (Apis dorsata). These bees are known to be able to transfer pollen over sizeable distances, and have also been inferred to facilitate pollen dispersal of another leguminous tree species, Koompassia malaccensis, between rainforest patches across a distance of more than 2.5 km within the urban landscape of Singapore (
In both the Neighbour-Net (Fig.
This hybrid is fertile, with extensive flowering and fruit set happening once a year (Fig.
The authors would like to thank the Singapore Land Authority for granting access to the site at 503 Cranwell Road, and Abigail Leong, Arthur Ng, Jonathan Lam, Koh Yong Kwang from the Streetscape Division, Yeo Chow Khoon from the Singapore Botanic Gardens of National Parks Board, Singapore (NParks) and Desmond Aw (TKB C-E Contractor Pte Ltd) for logistical support in sample collections in Changi. We would also like to thank Yap Ee Hean and Zestin Soh (NParks) for collecting and identifying the bees on the Cranwell Road tree. We are also grateful to Dr Matti Niissalo (NParks) and Dr Ngo Kang Min (Nanyang Technological University) for field work support for specimens collected from the Central Catchment Nature Reserve and Bukit Timah Nature Reserve. Dr Matti Niissalo and Dr Rowan Schley (University of Exeter) also provided advice on the molecular analyses. We would also like to thank Khoo-Woon Mui Hwang and Dr Gillian Khew (Singapore Botanic Gardens, NParks) for providing technical support and resources in the molecular lab. The authors are also grateful to the National Archives of Singapore for facilitating their research of the Changi area and for providing the aerial photographs for this paper. Dr Patrick Herendeen and Dr Jeremie Fant are also thanked for their constructive comments and suggestions which improved this manuscript.
Figure S1
Data type: Image.
Explanation note: ΔK value for the values of K = 2–5 for the 30 iterations of STRUCTURE conducted. The value of ΔK for K = 1 cannot be calculated. The highest value of ΔK at K = 2 shows that 2 is the optimal value of K for the STRUCTURE analysis.