Effects of macroalgal morphology on marine epifaunal diversity

Gan, Su Xuan; Tay, Y. C.; Huang, Danwei

doi:10.1017/s0025315419000900

Cited by 21 publications

(15 citation statements)

References 121 publications

(150 reference statements)

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“…The morphological study of small animals and zooplankton is particularly time-consuming because large numbers of specimens are usually collected (e.g. Schmoker et al 2014, Gan et al 2019). This includes planktonic larvae, which are some of the most difficult developmental stages to identify and are traditionally reliant on laboratory-reared larvae to match juveniles with adults (Miller et al 1989, Johnson and Allen 2005).…”

Section: Discussionmentioning

confidence: 99%

“…DNA barcoding via HTS ("HTS barcoding"; Wang et al 2018) can be used to process a large number of specimens (e.g. zooplankton from bulk samples), using a reverse workflow where all specimens are barcoded and pre-sorted into MOTUs that are considered putative species awaiting verification by taxonomic experts (Wang et al 2018, Gan et al 2019). HTS barcoding is faster and more than one order of magnitude cheaper than Sanger barcodes (Meier et al 2015).…”

Section: Methodsmentioning

confidence: 99%

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From marine park to future genomic observatory? Enhancing marine biodiversity assessments using a biocode approach

Yca¹,

Yc²,

Sx³

et al. 2019

BDJ

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Few tropical marine sites have been thoroughly characterised for their animal species, even though they constitute the largest proportion of multicellular diversity. A number of focused biodiversity sampling programmes have amassed immense collections to address this shortfall, but obstacles remain due to the lack of identification tools and large proportion of undescribed species globally. These problems can be partially addressed with DNA barcodes (“biocodes”), which have the potential to facilitate the estimation of species diversity and identify animals to named species via barcode databases. Here, we present the first results of what is intended to be a sustained, systematic study of the marine fauna of Singapore’s first marine park, reporting more than 365 animal species, determined based on DNA barcodes and/or morphology represented by 931 specimens (367 zooplankton, 564 macrofauna including 36 fish). Due to the lack of morphological and molecular identification tools, only a small proportion could be identified to species solely based on either morphology (24.5%) or barcodes (24.6%). Estimation of species numbers for some taxa was difficult because of the lack of sufficiently clear barcoding gaps. The specimens were imaged and added to “Biodiversity of Singapore” (http://singapore.biodiversity.online), which now contains images for > 13,000 species occurring in the country.

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Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

From marine park to future genomic observatory? Enhancing marine biodiversity assessments using a biocode approach

Yca¹,

Yc²,

Sx³

et al. 2019

BDJ

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“…Marine macroalgae harbor a diverse fauna in shallow waters (Christie, Norderhaug & Fredriksen, 2009;Gan, Tay & Huang, 2019). Epifaunal assemblages are maintained through the developmental cycle of their hosts, which provide continuous renewal of the resource (i.e., food and/or shelter), allowing associated populations to thrive (Seed & O'Connor, 1981).…”

Section: Introductionmentioning

confidence: 99%

Colonization of novel algal habitats by juveniles of a marine tube-dwelling amphipod

Bueno

Machado

Leite

2020

PeerJ

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Background Dispersal is an important process affecting population dynamics and connectivity. For marine direct developers, both adults and juveniles may disperse. Although the distribution of juveniles can be initially constrained by their mothers’ choice, they may be able to leave the parental habitat and colonize other habitats. We investigated the effect of habitat quality, patch size and presence of conspecific adults on the colonization of novel habitats by juveniles of the tube-dwelling amphipod Cymadusa filosa associated with the macroalgal host Sargassum filipendula. Methods We tested the factors listed above on the colonization of juveniles by manipulating natural and artificial plants in both the field and laboratory. Results In the laboratory, juveniles selected high-quality habitats (i.e., natural alga), where both food and shelter are provided, when low-quality resources (i.e., artificial alga) were also available. In contrast, habitat quality and algal patch size did not affect the colonization by juveniles in the field. Finally, the presence of conspecific adults did not affect the colonization of juveniles under laboratory condition but had a weak effect in the field experiment. Our results suggest that C. filosa juveniles can select and colonize novel habitats, and that such process can be partially affected by habitat quality, but not by patch size. Also, the presence of conspecifics may affect the colonization by juveniles. Successful colonization by this specific developmental stage under different scenarios indicates that juveniles may act as a dispersal agent in this species.

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“…This can be easily supplied by the thermocycling component of the BentoLab, thus making it a potentially convenient method of DNA extraction in situ. The QE solution has been used extensively on insects [ 35 , 36 , 49 , 50 , 51 ] as well as zooplankton [ 52 ] but only on a handful of marine macrofauna [ 39 ]. We tested the QE-based protocol on the BentoLab for the same group of samples prior to field sequencing.…”

Section: Methodsmentioning

confidence: 99%

Takeaways from Mobile DNA Barcoding with BentoLab and MinION

Chang

et al. 2020

Genes

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Since the release of the MinION sequencer in 2014, it has been applied to great effect in the remotest and harshest of environments, and even in space. One of the most common applications of MinION is for nanopore-based DNA barcoding in situ for species identification and discovery, yet the existing sample capability is limited (n ≤ 10). Here, we assembled a portable sequencing setup comprising the BentoLab and MinION and developed a workflow capable of processing 32 samples simultaneously. We demonstrated this enhanced capability out at sea, where we collected samples and barcoded them onboard a dive vessel moored off Sisters’ Islands Marine Park, Singapore. In under 9 h, we generated 105 MinION barcodes, of which 19 belonged to fresh metazoans processed immediately after collection. Our setup is thus viable and would greatly fortify existing portable DNA barcoding capabilities. We also tested the performance of the newly released R10.3 nanopore flow cell for DNA barcoding, and showed that the barcodes generated were ~99.9% accurate when compared to Illumina references. A total of 80% of the R10.3 nanopore barcodes also had zero base ambiguities, compared to 50–60% for R9.4.1, suggesting an improved homopolymer resolution and making the use of R10.3 highly recommended.

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Effects of macroalgal morphology on marine epifaunal diversity

Cited by 21 publications

References 121 publications

From marine park to future genomic observatory? Enhancing marine biodiversity assessments using a biocode approach

From marine park to future genomic observatory? Enhancing marine biodiversity assessments using a biocode approach

Colonization of novel algal habitats by juveniles of a marine tube-dwelling amphipod

Takeaways from Mobile DNA Barcoding with BentoLab and MinION

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