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Revista de Biología Tropical, ISSN: 2215-2075, Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
Status of the coral formations of Bajo Nuevo Reef Complex,
Western Caribbean, Colombia
Martha Catalina Gómez-Cubillos1*; https://orcid.org/0000-0003-3384-5969
Carlos Andrés Daza-Guerra1; https://orcid.org/0000-0001-6599-2328
Nelson Alejandro Lozano-Mendoza1; https://orcid.org/0000-0001-7886-777X
Sven Zea1; https://orcid.org/0000-0002-5657-4877
1. Instituto de Estudios en Ciencias del Mar (CECIMAR), Sede Caribe, Universidad Nacional de Colombia-Colombian
Marine Fauna Research Group: Biodiversity and Uses-c/o Invemar, Salguero Beach, Rodadero, Santa Marta, Colombia;
macgomezcu@unal.edu.co (*Correspondence), caadazagu@unal.edu.co, nelozanom@unal.edu.co, szeas@unal.edu.co
Received 19-I-2024. Corrected 22-XI-2024. Accepted 26-III-2025.
ABSTRACT
Introduction: Although many reefs have been disturbed by the combined effects of climatic and non-climatic
stressors, there still are regions largely free from direct human pressures such as runoff, pollution, and maritime
traffic due to their geographic remoteness. This suggests that they are replicas of “pristine reefs, that allow the
investigation of relationships between reef communities and their environment.
Objective: To evaluate the status of the coral formations of Bajo Nuevo, Seaflower Biosphere Reserve.
Methods: The coral health and the relative cover of reef-building organisms and of their main competitors were
evaluated. In every station (11), ten photo quadrants of 0.25 m2 were evaluated along a 10 m tape measure com-
bined, along with ~3 min videos.
Results: 32 coral species were recorded, 30 of them Scleractinia and two of hydrocorals, with the highest richness
in the reef lagoon. In 2021, the reefs in Bajo Nuevo were dominated by non-reef-building organisms (61.7 ± 0.10
%), the building species represented only 23.9 ± 0.10 %; 3.2 ± 0.03 % was coral skeleton with recent and transi-
tional death less than 15 days old. Signs of diseases affected three genera, 13 species and 23.5 % of the colonies
evaluated, of which 84.9 % showed one of the four signs related to the stony coral tissue loss disease.
Conclusions: With previous expeditions (2010-2011) as a reference, this reef complex registered in 2021 a drop
in the cover of hard corals and calcareous algae, and coral richness; an increase in the cover of non-reef-building
organisms, with a high prevalence of signs of unhealthiness associated with different coral diseases. This confirms
that these reefs are in danger (EN), as suggested by the red list of marine and coastal ecosystems of Colombia.
Keywords: stony corals; diversity; epizooties; atoll; coral mortality.
RESUMEN
Estado de las formaciones coralinas del complejo arrecifal de Bajo Nuevo, Caribe Occidental, Colombia
Introducción: Aunque muchos arrecifes han sido alterados por los efectos combinados de estresores climáticos y
no climáticos, aún existen regiones en gran medida libres de presiones humanas directas, como escorrentía, con-
taminación y tráfico marítimo, debido a su lejanía geográfica. Esto permite suponer que son réplicas de “arrecifes
prístinos, lo que facilita investigar las relaciones entre las comunidades de arrecifes y su entorno.
Objetivo: Evaluar el estado actual de las formaciones de coral de Bajo Nuevo, Reserva de la Biosfera Seaflower.
https://doi.org/10.15517/rev.biol.trop..v73i1.57590
AQUATIC ECOLOGY
2Revista de Biología Tropical, ISSN: 2215-2075 Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
INTRODUCTION
Although many reefs have been disturbed
by the combined effects of climatic and non-
climatic stressors, there are still regions largely
free from direct human pressures due to their
geographic remoteness and difficulties for
human settlement. Distance in remote ocean
environments has kept reefs out of the direct
effect of runoff, pollution and maritime trans-
port, and even until the early twentieth century,
they were thought of as pristine zones (Brain-
ard et al., 2005). This allows them to be replicas
of “pristine reefs, allowing to investigate the
relationships between reef communities and
their environment, mainly the effect of large-
scale disturbances (Bindoff et al., 2019; Perry et
al., 2015; Williams et al., 2015).
Knowledge gaps remain on the synergistic
and cumulative effects of global (i.e. ocean
warming) and regional (i.e. epizooties) scale
disturbances in these remote environments;
and few studies have compared the effect of dis-
turbances between remote reefs and those close
to areas of human populations (Bruckner, 2002;
Díaz-Pulido et al., 2004; Woodley et al., 2003).
Hence the importance of studies in reef forma-
tions and in general in remote ecosystems as
reference points to advance in the understand-
ing of the isolated effect of pressures operating
on a large scale in a climate change scenario.
In the Caribbean, after the large decline
of coral cover between 1970 and 1983, Souter
et al. (2021) estimated, with meta-analyses, an
additional decline of 2.1 % between 1999 and
2019. From Colombia to Mexico, the decline
was between 21.6 and 22.6 %; and only in the
Greater Antilles, coral cover increased (from
5.4 to 16.1 %) (Souter et al., 2021). Bajo Nuevo
reef complex is situated in the NW Carib-
bean, at the northern end of the Seaflower
Biosphere Reserve (Seaflower BR), and the
joint regime area Colombia-Jamaica. Due to
its remote location, the area has little historical
data, all obtained in expeditions organized by
the Colombian Navy, first in 2010 (Abril-How-
ard et al., 2012) and 2011 (Vega-Sequeda et al.,
2015), through Rapid Reef Assessments (RRA)
in 400 m2 plots, and during the Seaflower 2021
Scientific Expedition, through 10 m transects.
Because of its distance from the continent,
Bajo Nuevo is a model to assess the effect of
large-scale pressures on the status of remote
coral formations.
The objective of this study was to evalu-
ate the current status of the coral formations
of Bajo Nuevo, Seaflower Biosphere Reserve.
To test the hypothesis that coral formations in
remote environments remain in good condi-
tion due to distance to direct human pressures,
comparisons of diversity, cover and coral health
were performed between Expeditions (2010,
Métodos: Se evaluaron la salud del coral y la cobertura relativa de organismos constructores de arrecifes y de sus
principales competidores. En cada estación (11), se evaluaron diez cuadrantes fotográficos de 0.25 m² a lo largo
de una cinta métrica de 10 m, junto con videos de aproximadamente 3 minutos.
Resultados: Se registraron 32 especies de coral, 30 de corales pétreos y dos de hidrocorales, presentándose la
mayor riqueza en la laguna arrecifal. En 2021, los arrecifes de Bajo Nuevo estaban dominados por organismos no
constructores de arrecifes (61.7 ± 0.10 %), mientras que las especies constructoras representaban sólo el 23.9 ±
0.10 %; y un 3.2 ± 0.03 % era esqueleto coralino con muerte reciente y transicional menor a 15 días. Los signos
de enfermedad afectaron a tres géneros, 13 especies y al 23.5 % de las colonias evaluadas, de la cuales el 84.9 %
presentaron alguno de los cuatro signos relacionados con la enfermedad de pérdida de tejido de coral duro.
Conclusiones: Con expediciones anteriores (2010-2011) como referencia, este complejo arrecifal registró en 2021
una caída en la cobertura de corales duros y algas calcáreas, y en la riqueza coralina; un aumento en la cobertura
de organismos no constructores de arrecifes y, una alta prevalencia de signos de enfermedades coralinas. Esto
confirma que los arrecifes de Bajo Nuevo están en peligro (EN), como lo sugiere la lista roja de ecosistemas
marinos y costeros de Colombia.
Palabras claves: corales pétreos; diversidad; epizootias; atolón; mortalidad coralina.
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Revista de Biología Tropical, ISSN: 2215-2075, Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
2011 and 2021) (Abril-Howard et al., 2012;
Vega-Sequeda et al., 2015) and their relation-
ship with the variation in the sea surface tem-
perature (SST).
MATERIALS AND METHODS
Study area: Bajo Nuevo reef complex, also
known as Petrel islands, is located in the NW
Caribbean and is part of what is called the
Archipelago of San Andrés, Providencia and
Santa Catalina, belonging to Colombia. Bajo
Nuevo is located 475 km northeast of the island
of San Andrés, at coordinates 15°53’ N & 78°38’
W. It is part of the Seaflower Biosphere Reserve
declared by UNESCO in 2000. In 2005, the
Colombian Ministry of Environment, Hous-
ing and Territorial Development recognizing
that the archipelago shows high species diver-
sity and endemism (Acero & Garzón-Ferreira,
1994), created the Seaflower Marine Protected
Area, with an area of 65 000 km2 (Abril-Howard
et al. , 2011). This Reserve homes to approxi-
mately 76.5 % of the coralline areas of the
Colombian Caribbean (Díaz et al., 2000).
At Seaflower, reef complexes are a series
of isolated structures, aligned in NE direction
along the southern flank of the Nicaragua Ele-
vation (Díaz et al., 2000). These formations are
the result of volcanic activity during the early
Cenozoic, basement subsidence between the
Cenozoic-Quaternary and the accumulation of
reef limestone on shallow peaks (Díaz, 2005).
The seasonal nature of the climate in the region
governed by the migration of the intertropical
convergence zone (Guzmán et al., 2014). The
body of water that surrounds this zone has an
average surface temperature of 29.3 °C and, up
to 200 m, salinity is on average lower (36.4)
than in deep waters (37.11) (Monroy-Silvera &
Zambrano, 2017). In the Seaflower reef com-
plexes, the direction and strength of the NE
trade winds and the energy they move along the
Caribbean translate into similar geomorpho-
logical and ecological structure between atolls
(Díaz et al., 2000).
Bajo Nuevo is the northernmost reef
complex of Seaflower and is part of the
Colombia-Jamaica joint regime area (~225
km), an area of high fishery resource exploita-
tion due to its proximity to Pedro Bank (~136
km) (Abril-Howard et al., 2012). This complex
of 100 km2, is made up of two elongated atolls,
each with a barrier which is continuous to
windward and truncated to leeward and sepa-
rated from each other by a deep channel of ~90
m to (Díaz, 2005). From the Expeditions it was
demonstrated that the ecological units present
the traditional scheme of the Caribbean atolls,
with a fore-reef terrace and a barrier to wind-
ward, followed by a lagoon terrace and a lagoon
basin with anastomosed patch reefs. After the
reef slope, depths up to 1 500 meters are
reached (Díaz et al., 1996). Most of the seabed
between 5 m and 20 m is calcareous pavement
covered by an extensive layer of gravel and
coarse sand, the result of erosion of dead coral.
In the emerged area (< 20 m2) there is a light-
house and nearby are the ruins of a cargo ship.
Field work: Between November 24 and 30,
2021, during the “Seaflower Scientific Expedi-
tion: Bajo Nuevo Island Cay 2021”, aboard
the ARC Providencia, relative cover of reef-
building organisms (stony corals and coralline
algae) and their main competitors (macroalgae,
sponges and soft corals), and the coral health
were evaluated. Methods followed the recom-
mendations of the Global Coral Reef Monitor-
ing Network (GCRMN) since a combined view
of these components allows the description of
the current condition of the reef and under-
stand the possible trajectories over time (Inter-
national Coral Reef Initiative, 2016).
Sampling stations were selected using the
work grids from the 2010 expeditions (Abril-
Howard et al., 2012) and 2011 (Vega-Sequeda
et al., 2015) (Table 1, Fig. 1). At each station,
a band transect (10 x 2 m) was marked with a
measuring tape, and photographs were done
using the alternate photo-quadrat technique,
using a Canon Powershot G7 digital camera,
and a 50 x 50 cm, 1” PVC pipe reference frame.
Ten (10) 0.25 m² quadrats of were evaluated, for
a total of 2.5 m² per transect. (Gómez-Cubillos
et al., 2019). Additionally, three videos were
4Revista de Biología Tropical, ISSN: 2215-2075 Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
recorded along the transects (~3 min) at no
more than 1 m above the bottom, with GoPro
Hero 9 digital camera.
Twelve stations were evaluated in total
(two on the windward fore-reef terrace, three
on the lagoon terrace and seven on the lagoon).
In 11 stations, transects were made with the
photo quadrant technique (27.5 m2), and for 12
stations were reviewed 2 hours of video (Table
1, Fig. 1).
Image processing: Photo quadrants were
processed using ImageJ 1.52v (Schneider et
al., 2012). Per quadrant, using at 100-point
Fig. 1. Map of the study area: A. Location of the Seaflower Reserve, B. location of the Bajo Nuevo reef complex and C.
location of the stations evaluated in Expedition 2021.
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Revista de Biología Tropical, ISSN: 2215-2075, Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
grid, the coverage (%) of the benthic catego-
ries described by Caribbean Coastal Marine
Productivity (2001) and Garzón-Ferreira et al.
(2002) was calculated. Then, with polygons and
layers of the ROI Manager tool, by coral species,
the cover (cm2) of living tissue and skeleton
with recent (1-3 days), transitional (4-14 days)
and old (weeks to months) death, was estimated
(Bruckner, 2020).
From photos and videos, coral richness
(number of species) and abundance (number
of colonies) and the presence of signs associ-
ated with diseases were estimated. Per video,
~10 frames were selected. By image (photo-
graph and video frame), easily distinguishable
colonies were counted by species. As a colony,
any area of coral tissue growing independently
and separately from other neighboring colo-
nies was considered (Jackson et al., 1985). By
colony, the presence of signs related to coral
diseases was evaluated (Bruckner, 2020; Ray-
mundo et al., 2008; Weil et al., 2019). The signs
were selected taking as reference: a) changes
in coral tissue coloration (darkening, paleness,
bleaching), b) shape of the lesion (regular and
irregular), and c) exclusivity with the host.
The signs were tentatively assigned to one or
more coral diseases reported in the Caribbean
(Gil-Agudelo et al., 2009).
Data analysis: Data were processed using
Microsoft Excel spreadsheets. Per station, rich-
ness was estimated as the number of species;
abundance was estimated from the number
of colonies; total and relative cover (%) was
estimated from random points and polygons,
and the prevalence of signs (%) by coral species
and colonial type (# cases with signi / # total
colonies spj) (Weil & Rogers, 2011). Geomor-
phological unit, depth and level of exposure to
swell were used as analysis factors (Díaz et al.,
1996; Garzón-Ferreira et al., 2002; Zea, 2001).
The results were classified, according to the life
history types of coral species proposed by Dar-
ling et al. (2012) and Randazzo-Eisemann &
Garza-Pérez (2022), as competitive, generalist,
stress tolerant and weedy.
The representativeness of the sampling
was calculated using the estimator proposed by
Chao & Jost (2012), which is a measure of the
Table 1
Location and general characteristics of the stations evaluated in Bajo Nuevo during Expedition 2021.
Station ID Coordinates Depth Level Exposure Level Geomorphological Unit
Latitude Longitude
E1 15.922056 -78.563389 Medium 2 FT
E2 15.812750 -78.725889 Medium 1 LT
E3 15.828222 -78.699361 Shallow 1LT
E4 15.851917 -78.670611 Medium 0 L
E5 15.844583 -78.668083 Shallow 1LT
E6 15.876222 -78.638194 Medium 1 L
E7 15.857917 -78.667111 Deep 0 L
ARC 15.894500 -78.672750 Deep 2 FT
E8 15.864861 -78.678722 Medium 0 L
E9 15.863583 -78.659611 Medium 0 L
E10 15.914250 -78.581111 Medium 0 L
E11 15.911111 -78.575583 Medium 0 L
Abbreviations: Depth Level: Shallow > 7 m; Medium between 7 and 12 m; Deep > 12 m (Garzón-Ferreira et al., 2002).
Exposure Level: 0 (none); 1 (low); 2 (moderate); 3 (high), with respect to swell and depth of the water column (Zea, 2001).
Geomorphological Unit: FT (Windward fore-reef terrace); LT (Lagoon terrace); L (Lagoon with coral patches) (Díaz et al.,
1996). Metadata can be downloaded at the Marine Biodiversity Information System site (SiBM for its initials in Spanish)
(Gómez-Cubillos et al., 2023).
6Revista de Biología Tropical, ISSN: 2215-2075 Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
completeness of the sample with respect to the
size of the community. Diversity was calculated
by Chao interpolation and extrapolation analy-
sis, using Hill numbers in units of the effective
number of species (Chao et al., 2014; Hill, 1973;
Jost, 2006). The values of true diversity, 0D (spe-
cies richness), 1D (common species) and 2D
(very abundant species), with their respective
confidence intervals at 95 %, were calculated
using the iNEXT package (Hsieh et al., 2022).
Using data of presence-absence of species with
the help of the BAT package (Cardoso et al.,
2022), beta diversity (β) was calculated based
on Jaccard dissimilarity. In this, total dissimi-
larity (βcc) = replacement of species (β-3) +
differences in richness (Brich), as proposed by
Carvalho et al. (2013). These analyses were
performed using the R software version 4.3.1 (R
Development Core Team, 2017). The changes
in composition and structure of the assembly
between geomorphological units were analyzed
with the technique of non-metric multidimen-
sional scaling (nMDS) using as distance mea-
sure the binary Bray-Curtis similarity index
(Primer-E V.6), with the cover data in % previ-
ously processed with the angular transforma-
tion (arc sine √ ( x / 100)).
To catalog the species according to their
abundance (colonies), the proportion of indi-
viduals with respect to the total was calculated
in each species, ordered from highest to lowest
by the base 10 logarithm. Confidence limits
at 95 % were obtained by resampling, using a
Bootstrap with the boot package (Canty & Rip-
ley, 2022); this analysis was carried out using
the R program version 4.3.1 (R Development
Core Team, 2017). In this way, the species that
were found above the upper limit of that inter-
val were cataloged as abundant, those found
within the interval were cataloged as common,
and those below the lower limit were cataloged
as scarce (Cruz et al., 2017).
Expedition 2021 results were compared
with those obtained in previous expeditions
from 2010 (Abril-Howard et al., 2012) and 2011
(Vega-Sequeda et al., 2015). To explain trends
observed in 2021 about the health status of the
coral formations in Bajo Nuevo, the sea surface
temperature (SST) was estimated from NOAA
interactive maps (series: 2009-2021) (Nation-
al Oceanic and Atmospheric Administration
[NOAA], 2023).
RESULTS
In the windward fore-reef terrace (depth: 7
m), an environment very exposed to swell, the
structural complexity was low, fleshy macroal-
gae (Turbinaria spp.) dominated, and the corals
were small, scabby and scattered. In the lagoon
terrace (depth: 5.6-7.2 m), where the swell has
already dissipated at the barrier, patches of
reefs with variable structural complexity were
observed, consisting of Orbicella spp. and very
old skeletons of Acropora palmata. Finally, in
the reef lagoon (depth: 7.3-14 m), a relatively
calm water habitat increased the structural
complexity in the form of anastomosed patches
of Orbicella spp. and giant standing skeletons of
brain corals (Colpophyllia natans, Diploria laby-
rinthiformis and Pseudodiploria strigosa) and of
Siderastrea siderea.
Richness of coral species: In November
2021, 32 species of hard corals were recorded,
30 of which were scleractinian and two hydro-
corals (Fig. 2). The greatest richness was pres-
ent in the reef lagoon with 32 species, seven of
them exclusive to the lagoon. In contrast, on
the windward fore-reef terrace, 20 species were
observed (Fig. 2). In general, the lowest rich-
ness (17 spp.) was recorded at the stations most
exposed to swell and increased as the degree
of exposure decreased. All species were found
at medium depth (7-12 m; 32 spp.), while in
deeper (> 12 m; 25 spp.) and shallow (< 7 m; 20
spp.) waters the diversity decreased (Table 2).
The richness observed in Expedition 2021
(32 spp.) was lower than the records of 2010
(36 spp.) and 2011 (37 spp.) (Abril-Howard
et al., 2012; Vega-Sequeda et al., 2015) (Fig. 2;
Table 1). When comparing beta (β) diversity
between Expeditions, a dissimilarity (βcc) of
48.9 % was estimated with what was recorded
for April 2010 by Abril-Howard et al. (2012).
This value was mainly attributed to species
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Table 2
Species of hard corals recorded in Bajo Nuevo during the 2010 (Abril-Howard et al., 2012), 2011 (Vega-Sequeda et al., 2015)
and 2021 expeditions.
Species Type Total 2010 Total 2011 2021
Total FT LT L
Acropora cervicornis C x x+x+x*
Acropora palmata C x x+x++ x x x
Agaricia agaricites W x x++ x+++ x x x
Agaricia fragilis W x x+x+++ x x x
Agaricia grahamae W x+++ x x
Agaricia humilis W x++ x x x
Agaricia lamarcki W x x+
Agaricia tenuifolia W x+x++ x x
Cladocora arbuscula NC x+x
Colpophyllia natans ST x x+x++ x x
Colpophyllia breviserialis NC x+x*
Dendrogyra cylindrus C x x+
Dichocoenia stokesii ST x x+
Diploria labyrinthiformis ST x x+x++ x x x
Eusmilia fastigiata NC x x+
Favia fragum W x x+x++ x x x
Helioseris cucullata W x x+x++ x x x
Isophyllia rigida W x x+x+x x
Isophyllia sinuosa W x x+
Madracis decactis W x x+x+++ x x x
Madracis cf. myriaster NC x
Manicina areolata W x x+x+x*
Meandrina meandrites ST x x+
Millepora alcicornis NC x x++ x+++ x x x
Millepora complanata NC x x+x+x x*
Montastraea cavernosa ST x x+x+x*
Mycetophyllia aliciae W x+x+x*
Mycetophyllia danaana NC x+x*
Mussa angulosa W x
Mycetophyllia ferox W x
Mycetophyllia lamarckiana W x x+
Orbicella annularis ST x x++ x+++ x x x
Orbicella faveolata G x x++ x+++ x x x
Orbicella franksi G x x+x+++ x x
Porites astreoides W x x++ x+++ x x x
Porites divaricata W x+x+++ x x x
Porites porites W x++ x+++ x x x
Porites furcata W x
Pseudodiploria clivosa ST x x+x+x x
Pseudodiploria strigosa ST x x++ x++ x x x
Scolymia sp. W x+
Scolymia cubensis W x
Siderastrea radians W x x+x++ x x x
Siderastrea siderea ST x x++ x+++ x x x
Stephanocoenia intersepta ST x x+x+x x
Stylaster roseus NC x x+
Tubastraea coccinea NC x+
Abbreviations: Type (according to life story): C = competitive, W = weed, ST = stress tolerant, G = generalist and NC =
Not classified. FT = Windward fore-reef terrace; LT = Lagoon terrace and L = Lagoon with coral patches. x (presence); x*
(exclusive species); abundance: + (scarce), ++ (common), +++ (abundant) (Cruz et al., 2017).
8Revista de Biología Tropical, ISSN: 2215-2075 Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
replacement (β-3) (40 %) and to a lesser extent
to the difference in richness (βrich) between
expeditions (8.9 %). When comparing with the
records of Vega-Sequeda et al. (2015) of August
2011, the dissimilarity (βcc) was lower (35.7
%) and was due to species replacement (β-3)
(23.8 %) (Table 1). This species replacement
-3) between the 2021 expedition and the pre-
vious ones, is evidenced in new records for Bajo
Nuevo with species such as Agaricia humilis, A.
grahamae, Cladocora arbuscula, Mycetophyl-
lia danaana and Colpophyllia breviserialis, the
latter being a new record for the San Andrés
Archipelago. On the contrary, species recorded
in 2010 and 2011 expeditions, such as Agaricia
lamarcki, Dendrogyra cylindrus, Dichocoenia
stokesii, Eusmilia fastigiata, Isophyllia sinuosa,
Meandrina meandrites, Mycetophyllia lamarck-
iana and Stylaster roseus were not observed in
2021 (Table 2).
For Bajo Nuevo, the representativeness of
the sampling reached 100 % in 2021, accord-
ing to the Chao & Jost (2012) estimator. Using
diversity analysis (iNEXT), a species richness
of 0D = 32 ± 3.44 (effective species ± I.C) was
estimated. When considering all species with
a weight proportional to their abundance, a
diversity of 1D = 9.8 ± 0.31 effective species was
estimated, evidencing a low uniformity with
species with a high number of colonies and
other scarce species. Finally, by giving greater
weight to dominant species, a diversity of 2D
= 5.6 ± 0.23 was estimated. Of 7 123 colonies
counted, the most abundant species were Orbi-
cella annularis (2 415 colonies), Agaricia agar-
icites (1 191), Porites astreoides (481), Orbicella
faveolata (438) and Porites porites (356).
Benthic cover: In November 2021, the
reefs in Bajo Nuevo were dominated by non-
reef-building organisms (61.7 ± 0.10 %) ( ±
1 standard deviation - S.D.). The building spe-
cies (corals, hydrocorals and calcareous algae)
only accounted for 23.9 ± 0.10 %. The abiotic
substrate (14.4 ± 0.09 %) was made up of soft
bottoms of sand and debris (11.2 ± 0.10 %) and
coral skeleton with recent and transitional death
less than 15 days old (3.2 ± 0.03 %) (Fig. 3).
The highest cover of reef-building organisms
was found in the lagoon (29.1 %), habitat with
medium depth and low exposure to swell. In
general, non-reef-building communities domi-
nated in all environments (Lagoon-L = 57.1 %;
Lagoonal Terrace-LT = 65.8 %; Windward fore-
reef terrace-FT = 82.3 %) as well as in the dif-
ferent depths and levels of exposure.
When excluding the abiotic substratum to
recalculate the living cover, it was confirmed
that fleshy macroalgae have been increasing
in the last decade, becoming dominant in the
Fig. 2. Richness of hard corals recorded for the Bajo Nuevo reef complex during expeditions 2010 (Abril-Howard et al., 2012),
2011 (Vega-Sequeda et al., 2015) and 2021.
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community, as they increased from 27.3 ± 10.47
% in 2010 (Abril-Howard et al., 2012), to 37.8
% in 2011 (Vega-Sequeda et al., 2015) and to 72
± 0.10 % in 2021. The high macroalgal cover
recorded in 2021 is mainly attributed to turf
algal growth (43.2 ± 0.07 %) (Fig. 3). Corals and
hydrocorals contributed 19.8 ± 0.08 %, especial-
ly massive corals (14.5 ± 0.08 %) (Fig. 3). Hard
coral cover in 2021 was higher than what was
recorded in 2011 by Vega-Sequeda et al. (2015)
(12.1 %), but lower than what was recorded in
2010 by Abril-Howard et al. (2012) (30.2 ± 19.1
%). The contribution of other invertebrates was
8.2 ± 0.04 %, mostly soft corals (5.3 ± 0.04 %)
(Fig. 3, Table 3).
Macroalgae dominated in all stations; the
highest covers were recorded in the windward
terrace (88.4 %) and the lowest ones were
recorded in the lagoon (65.5 %). Among geo-
morphological units, turf algal cover varied
between 40.2 and 49.7 %. Erect fleshy algae
(Dictyota spp. and Turbinaria spp.) dominated
on the windward terrace (42.1 %) and crustose
and articulated calcareous algae (Halimeda spp.
and Amphiroa spp.) were more abundant in
protected environments (Lagoon-L = between
3.4 and 5.6%) than in exposed environments
(Windward fore-reef terrace-FT = between
0.7 and 0.9 %).
The highest covers of corals and hydro-
corals were recorded in the lagoon (24.8 %) and
the lowest ones were recorded in the windward
terrace (6.9 %), differences attributed mainly to
the contributions of massive corals (Lagoon-
L = 19.9 %, Lagoonal Terrace-LT = 5.6 %,
Windward fore-reef terrace-FT = 5.7 %). The
foliaceous and branched corals presented the
highest covers in the lagoon terrace (2.7-5.4%)
and the lowest ones in the windward terrace
(0-0.2 %). The highest hard coral cover record-
ed in the lagoon in 2021 coincides with what
was reported by Abril-Howard et al. (2012);
however, the records in 2010 are approximately
three times higher (70 %) than what was evi-
denced in 2021 (Table 3). In addition, in 2021,
in no transect hydrocorals exceed a 1 % cover.
The highest cover of other sessile inver-
tebrates was recorded in the lagoon (9.7 %),
followed by the lagoon terrace (5.7 %) and the
windward terrace (4.7 %). This pattern is attrib-
uted to the contribution of soft corals in the
lagoon (6.5 %) and in the lagoon terrace (4.3
%) and their absence in the windward terrace;
habitat where sponges presented the highest
cover (4.7 %).
In terms of coral cover, O. annularis was
the most abundant species (7.1 ± 0.08 %), fol-
lowed by Agaricia spp. complex (3.2 ± 0.03 %)
Fig. 3. Cover % (relative to total alive) of reef-building organisms and their main competitors (macroalgae and other sessile
invertebrates) in the Bajo Nuevo reef complex, in November 2021. (Average ± 1 S.D.).
10 Revista de Biología Tropical, ISSN: 2215-2075 Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
and O. faveolata (2.9 ± 0.03 %). The individual
contributions of the other coral species (29
spp.) were less than 1 % (Table 3).
When comparing the coral cover between
stations, stations E1 (FT) and E5 (LT) were the
most extreme along axis 1 of the nMDS (Fig. 4),
due to the presence of species that were record-
ed only in these stations, such as Pseudodiploria
clivosa (4.7 %) in station E1 (total coral 6.9 %),
and A. palmata (4.7 %) and C. arbuscula (0.4 %)
in station E5 (total coral 15.7 %). In addition, in
E5 Favia fragum had its highest cover (0.7 %).
In the group comprising stations E2-E3 (Fig.
4), located on the lagoonal terrace, cover varied
between 12.2 % and 13.6 %, with Agaricia spp.
(E2 = 6.6 % and E3 = 8.6 %) being the largest
Table 3
Total and mean cover ± 1 S.D. (%) of coral species and other benthic categories recorded during the 2010 (Abril-Howard et
al., 2012), 2011 (Vega-Sequeda et al., 2015) and 2021 expeditions.
Species / Category 2010 2011* 2021**
Total corals and hydrocorals 30.19 ± 19.11. Up to 70 in the lagoon 12.1 19.83 ± 0.08
Orbicella annularis 4.72 ± 2.97 7.08 ± 0.08
Agaricia spp.1.67 ± 0.87 3.24 ± 0.03
Orbicella faveolata 3.45 ± 2.83 2.90 ± 0.03
Porites porites 1.00 ± 0.01
Orbicella franksi 1.16 ± 0.76 0.93 ± 0.02
Siderastrea siderea 2.04 ± 1.09 0.70 ± 0.01
Porites astreoides 0.58 ± 0.01
Madracis decactis 0.55 ± 0.01
Acropora palmata 0.43 ± 0.01
Pseudodiploria clivosa 0.42 ± 0.01
Diploria labyrinthiformis 0.65 ± 0.50 0.41 ± 0.01
Millepora spp. 0.32 ± 0.00
Porites divaricata 0.32 ± 0.01
Colpophyllia natans 0.30 ± 0.01
Siderastrea radians 0.28 ± 0.00
Pseudodiploria strigosa 1.02 ± 1.19 0.21 ± 0.01
Favia fragum 0.11 ± 0.00
Cladocora arbuscula 0.04 ± 0.00
Mycetophyllia aliciae 0.02 ± 0.00
Helioseris cucullata 0.01 ± 0.00
Meandrina meandrites 0.33 -
Eusmilia fastigiata 0.50 -
Macroalgae 27.35 ± 10.47 37.8 71.98 ± 0.10
Turfs 43.18 ± 0.07
Erect fleshy 21.02 ± 0.09
Calcareous articulated 5.10 ± 0.02
Crustose algae 2.67 ± 0.02
Other sessile invertebrates 8.19 ± 0.04
Gorgonaceans 13.5 5.26 ± 0.04
Sponges 6.7 2.70 ± 0.02
Other 0.22 ± 0.00
Soft bottoms 27.6 11.18 ± 0.10
* Average cover of coral species susceptible to SCTLD (Kramer et al., 2020), based on the results of the 2011 Expedition
(Vega-Sequeda et al., 2015). / ** Cover relative to total alive in 2021, except for the Soft Bottoms category.
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contributor. The highest cover occurred in the
lagoon groups of stations, varying between 19
and 33.2 %, excepting in station E11 (11.6 %).
In this habitat, Agaricia spp. had a lower cover
(1.3 and 6.1 %) and O. annularis had a greater
cover (0.7 and 25.4 %). The differences within
the lagoon group were given by the species spe-
cific to each station [E7 = Colpophyllia natans
(3.3 %) and Mycetophyllia aliciae (0.2 %), E10
= Helioseris cucullata (0.1 %), E11 = Diploria
labyrinthiformis (4.5 %)] (Fig. 4).
It is noteworthy that in November 2021,
45.4 ± 0.1 % of the benthic cover was ancient
coral skeleton (Bruckner, 2020), covered by
organisms with encrusting growth such as algal
turf, gorgonaceans (Erythropodium caribaeo-
rum), sponges (Chondrilla caribensis) and tuni-
cates (Trididemnum solidum). The contribution
of these organisms together in the different
geomorphological units was very homoge-
neous, varying between 42.9 and 49.1 %. The
greatest cover was found in shallow (49.1 %)
stations, compared to mid-depth (45.3 %) and
deep (39.9 %) stations. These results, together
with the proportion of coral skeleton with
recent and transitional death (3.2 ± 0.03 %),
suggest that recent pulses of coral tissue loss
have occurred in Bajo Nuevo, being more
intense in shallow waters.
Coral health: In 2021, seven signs associ-
ated with six coral diseases and health con-
ditions [White Band Disease (WBD); White
Plague Disease (WPD); Yellow Band Disease
(YBD); Dark Spots Disease (DSD); Aspergil-
losis (ASP) and bleaching] were identified (Gil-
Agudelo et al., 2009). In addition, four of these
signs can be associated with Stony Coral Tissue
Loss Disease (SCTLD) (Table 4). The highest
number of colonies with signs of disease was
found in the lagoon (76.7 %), followed by the
lagoon terrace (20.9 %) and the windward ter-
race (2.4 %).
The reported signs affected three genera,
13 species and 23.5 % (1 674) of the colo-
nies evaluated (Table 4; Fig. 5). The massive
meandroid forms (Colpophyllia natans, Diploria
labyrinthiformis and Pseudodiploria strigosa)
showed a 53.4 % sign prevalence of, followed
by the plocoid forms (Orbicella spp. complex)
Fig. 4. Non-metric multidimensional scaling analysis (nMDS), based on a Bray-Curtis similarity matrix of hard coral cover,
comparing among geomorphological units. Abbreviations: FT = Windward fore-reef terrace; LT = Lagoonal terrace and L =
Lagoon with coral patches.
12 Revista de Biología Tropical, ISSN: 2215-2075 Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
Table 4
Evaluated health signs, associated diseases and host coral species.
Sign Description Associated diseases Host species
1Polyps with loss of color. Dispersed or regular
pattern.
SCTLD
Bleaching
O. annularis
O. faveolata
2Bands and/or spots of exposed skeleton (white)
in contact or not with necrotic tissue.
White Band Disease (WBD) A. cervicornis
A. palmata
3
Irregular patches of exposed skeleton. In contact
or not with necrotic tissue and high production
of mucus.
SCTLD
Bleaching
White Plague Disease (WPD)
Agaricia spp.
C. natans
D. labyrinthiformis
M. decactis
Millepora spp.
O. annularis
O. faveolata
P astreoides
Porites spp.
P. strigosa
S. siderea
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Revista de Biología Tropical, ISSN: 2215-2075, Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
Sign Description Associated diseases Host species
4
Patches and rings of yellow color, in contact
or not with necrotic tissue or exposed skeleton
(white).
SCTLD
Bleaching
Yellow Band (Blotch) Disease (YBD)
White Plague Disease (WPD)
Agaricia spp.
O. annularis
O. faveolata
O. franksi
P astreoides
P. strigosa
5
Dark spots from black to violet, with irregular
shape and size, can be depressed, low-lying
with respect to healthy tissue. Inside it can have
necrotic zones. High production of mucus.
SCTLD
Bleaching
Dark Spots Disease (DSD)
Agaricia spp.
C. natans
D. labyrinthiformis
O. faveolata
S. siderea
6Dark spots from black to violet. Small with
irregular shape.
Dark Spots Disease (DSD) S. siderea
7Violet spots of irregular size and shape. In contact
or not with necrotic tissue.
Aspergillosis (ASP)
Predation
G. ventolina1
G. flabellum
14 Revista de Biología Tropical, ISSN: 2215-2075 Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
with 30 %. Of the total affected colonies, 84.9 %
showed one of the four signs related to SCTLD.
Among massive corals, S. siderea (63.9 %)
showed the highest prevalence of unhealthy
signs (Fig. 5).
Of the total cases, signs three and four,
described for four diseases (Table 4), presented
the highest occurrence (30.6 and 30 %, respec-
tively). Then, sign seven, exclusive to the genus
Gorgonia, represented 13.5 % of the cases, with
a prevalence of 54.1 %. Sign five was present in
13 % of all the affected colonies, with a higher
prevalence in S. siderea (49.8 %) and D. labyrin-
thiformis (19.4 %). Sign one represented 10.5 %,
while sign two, exclusive to the genus Acropora,
was present in 1.6 % of the affected colonies;
but its prevalence in Acropora cervicornis was of
72.7 % and in A. palmata was of 26 %. Finally,
sign six was present exclusively in S. siderea
with a prevalence of 5.9 % (Fig. 5).
Sea surface temperature (SST): According
to the NOAA interactive portal, in the South
Atlantic region, where Bajo Nuevo is located,
the annual cycle of the SST begins with the
progressive warming of the waters at the end of
June (28-29 ºC), reaching the maximum values
(31 ºC) during the height of the rainy season
(September-October) and decreasing to 27 ºC
between January and February. In the analyzed
series (2009-2021), during the rainy seasons of
2010, 2015 and 2017, the maximum sustained
SST was ~32 ºC and in 2019 it recorded ~33 ºC,
values above the physiological optimum upper
limit estimated for corals and zooxanthellae (>
31.5 ºC) (Baumann et al., 2016; Fitt et al., 2000;
Kleypas et al., 1999) (Fig. 6).
DISCUSSION
In 2021, coral richness was lower than
that recorded in previous expeditions (Abril-
Howard et al., 2012; Vega-Sequeda et al., 2015).
Between expeditions, species replacement pre-
sented greater importance in terms of beta
diversity (β); process that generates a homog-
enization in the types of life history and a
tendency to favor species considered weeds,
which opportunistically colonize recently dis-
turbed habitats (Randazzo-Eisemann & Garza-
Pérez, 2022). Darling et al. (2013) suggest that
thermal bleaching and other anthropogenic
stressors overfishing may drive changes in the
composition of reef communities. Moreover,
during these transitions, surviving corals have
stress-tolerant, and these changes in commu-
nity structure affect reef ecosystem functions
and services essential to human well-being
(Randazzo-Eisemann & Garza-Pérez, 2022).
Fig. 5. Prevalence (%) total and by signs of deterioration and coral species for the Bajo Nuevo reef complex, in November
2021. For more details, see Table 2. The diamonds indicate the total number of colonies.
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In the last decade, in Bajo Nuevo, the low
cover and abundance of competitive species
such as Acropora spp. and the absence of D.
cylindrus during 2021, in part, may be related
to large-scale disturbances that caused a sig-
nificant reduction of Acroporidae populations
in the Caribbean since the late 1980s, and the
documented low recovery rates for the Carib-
bean (García-Ureña et al., 2020; Gardner et
al., 2003; Souter et al., 2021). Furthermore,
several authors agree that competitive species
only dominate in “ideal” environments, so that
a decrease in their cover and in the structural
complexity of the reef is to be expected with the
increase of these disturbances, due to its high
sensitivity to breakage and dislodgment during
storms, low tolerance of stress and high mortal-
ity after bleaching from thermal anomalies and
epizooties (WBD and serratiosis) (Baumann
et al., 2016; Darling et al., 2012; Madin, 2005;
McClanahan et al., 2007).
Conversely, in the last decade, the areas
with the greatest coral development in Bajo
Nuevo have been dominated by the Orbicella
spp. complex, both in cover and abundance.
This is because O. annularis is more tolerant to
stress, has higher fecundity, episodic spawning
events and large corallites. These characteristics
allow it to store energy and resist sustained
recruitment failure for decades, increasing its
long-term survival in stressful environments
(Hughes & Tanner, 2000; van Woesik et al.,
2012). In addition, O. faveolata and O. franksi
are generalist and more competitive species
(Baumann et al., 2016; Darling et al., 2012).
However, a high prevalence of unhealthy signs
(30 %) in 2021 suggests that these species
have been affected by bleaching and other
diseases, causing pulses of massive loss of tis-
sue, as has been recorded in other Carib-
bean reefs (Álvarez-Filip et al., 2011); events
that may recur as temperature stress increases
(Buglass et al., 2016; Gardner et al., 2003;
Greenstein et al., 1998).
Despite differences in coral richness and
cover between expeditions, probably influenced
by the methodologies used in each of them, the
results indicate that the reefs of Bajo Nuevo are
experiencing a change from the dominance of
corals to the dominance of macroalgae, mainly
of algal turfs, a trajectory already described for
other Caribbean reefs (Souter et al., 2021).
Coral diseases are one of the main causes
of degradation in reefs and the estimation
of their prevalence is an approximation to
recognize the potential degradation of a reef
Fig. 6. Average values of Sea Surface Temperature – SST (°C) in the South Atlantic region, between 2009-2021 (NOAA, 2023).
Red line marks limits of physiological stress for corals and zooxanthellae.
16 Revista de Biología Tropical, ISSN: 2215-2075 Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
area (Gil-Agudelo et al., 2009). Although dis-
eases are a natural process, they are problematic
when outbreaks negatively affect populations,
leading them to vulnerable or near-extinction
states (Raymundo et al., 2008). In this regard,
the Caribbean is considered a hot spot of epi-
zooties, due to the high number of pathologies,
high virulence rates and number of species
affected (~75 %) (Raymundo et al., 2005). Like-
wise, the islands of San Andrés and Providencia,
in Seaflower, are classified as a center of high
prevalence of diseases, especially WBD and
DSD (Navas-Camacho et al., 2010), although
there is no clarity of the factors that contribute
to it (Weil et al., 2002). However, in 2021 there
were no signs associated with Black Band Dis-
ease, considered one of the infectious diseases
that has most influenced the deterioration of
many reefs worldwide (Ainsworth et al., 2007).
In 2021, 3.2 % of the Bajo Nuevo hard ben-
thos was coral skeleton with recent and transi-
tional death less than 15 days old. In addition,
23.5 % of the colonies showed signs associated
with bleaching and epizooties. According to
Lirman et al. (2014), values > 2 % of recent
mortality reflect significantly stressful condi-
tions. So, the high prevalence of signs un
unhealthy, the number of affected species and
the proportion of recently dead coral skeleton,
show that this reef complex was going through a
pulse of mortality caused by outbreak of mixed
epizooties, with similar signs but different eti-
ologies. Besides, the evaluated signs suggest
the presence of at least six different epizooties,
including SCTLD. This disease represents an
important threat to the Caribbean reefs due to
its wide geographic range, extended duration,
high mortality rates (weeks to months) and the
large number of coral species affected (Reefre-
silience, 2023).
Mixed epizooties outbreaks have already
been previously documented in coral reef, as
well as their significant relationship with ther-
mal anomalies (Bruno et al., 2007). It is recog-
nized that host density (coral cover) acts as a
threshold in the incidence of these outbreaks
(Bruno et al., 2007) and that horizontal trans-
fer due to the proximity between healthy and
unhealthy colonies, together with the presence
of vectors (fish and invertebrates) determines
the severity of each outbreak (Jones et al., 2004;
Kuta & Richardson, 2002). different studies
have shown that anomalies in SST linked to
the climate change increases the occurrence
of coral diseases (Jaap, 2000; Patterson et al.,
2002), because induce bleaching episodes and
outbreaks of YBD, DSD and ASP (Gil-Agudelo
et al., 2009), which can be more aggressive in
reefs with high coral cover (e.g. Bajo Nuevo
in 2010). These findings indicate that, in Bajo
Nuevo, a probable cause of this mixed outbreak
in 2021 is the thermal stress generated by
anomalies in SST, which increase stress in cor-
als and favor the proliferation of certain groups
of pathogens associated with these diseases
(Bruno et al., 2007; Francini-Filho et al., 2010;
Kuta & Richardson, 2002).
Another important finding was the pro-
portion of standing ancient skeletons of giant
colonies of S. siderea and meandroid corals
(C. natans, D. labyrinthiformis and P. strigosa),
without evidence of physical or mechanical
damage. Although storms have drastic effects
on the composition, stability, and structure of
communities, and Seaflower is located within
the Caribbean hurricane belt (Díaz et al., 2000),
in 2021 there was no evidence of recent coral
damage caused by storms. These skeletons,
with varying degrees of erosion, were occu-
pied by communities with irregular shapes
and encrusting growth such as algal turf, gor-
gonaceans, sponges and tunicates. In 2021 this
portion of the benthos accounted for approxi-
mately half of the monitored benthic cover.
These indicate that Bajo Nuevo has experienced
different pulses of coral death in the last decade.
In addition, the historical decrease in the cover
of meandroid corals and the absence of other
species such as Eusmilia fastigiata and Meandri-
na meandrites, which were previously abundant
(2010-2011), are evidence of the occurrence
of different mortality pulses and that some of
them could be related to SCTLD, because this
disease is lethal for these species (advance rate
of 3-4 cm/day; Weil et al., 2019).
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Revista de Biología Tropical, ISSN: 2215-2075, Vol. 73: e57590, enero-diciembre 2025 (Publicado Abr. 28, 2025)
Climatic and oceanographic conditions
modify a wide variety of ecological processes
and thermal anomalies influence the sever-
ity and dynamics of epizooties (Bruno et al.,
2007). Experimental studies have shown that
thermal stress significantly affects the photo-
synthetic efficiency, growth and survival of cor-
als, although the specific responses depend on
the species and age of the coral (Kuanui et al.,
2015), thus positioning itself as a critical factor
in the structuring of reef communities (Bau-
mann et al., 2016). Therefore, the anomalies in
the SST between 2009 and 2021 partly explain
the causes of coral deterioration (mixed epizo-
oties) and the consequences of these changes
on the structure of reef communities in Bajo
Nuevo (replacement of coral species and chang-
es towards the dominance of fleshy macroalgae,
particularly alga turf).
With this study, it is concluded that the
hypothesis that remote ocean reefs experience
less deterioration due to their remoteness from
direct human disturbances, is ruled out for Bajo
Nuevo. Taking as reference the results of previ-
ous expeditions (2010-2011), this reef complex
registered in 2021 an evident drop in the cover
of hard corals and calcareous algae; a decrease
in coral richness and increase in the cover of
non-reef-building organisms (macroalgae) and
high prevalence of signs unhealth associated
with different coral diseases. This condition
may be a response of the communities to large-
scale pressures, such as anomalies in sea surface
temperature (SST). The results on the current
status of Bajo Nuevo confirm that these reefs
are endangered (EN), as suggested in the red
list of marine and coastal ecosystems of Colom-
bia (Uribe et al., 2020).
Ethical statement: The authors declare
that they all agree with this publication and
made significant contributions; that there is no
conflict of interest of any kind; and that we fol-
lowed all pertinent ethical and legal procedures
and requirements. All financial sources are fully
and clearly stated in the acknowledgments sec-
tion. A signed document has been filed in the
journal archives.
ACKNOWLEDGMENTS
We recognize the invaluable contributions
of the crew of the ship ARC Providencia,
the staff of the Colombian Ocean Commis-
sion–CCO [for its Spanish initials], especially
Juliana Acero and David Barrios, coordinators
of the Seaflower Scientific Expedition 2021
- II Bajo Nuevo Cay Islands, and each one of
the 19 expedition participants. We appreciate
the financial support of the Ministry of Sci-
ence, Technology and Innovation through the
Colombia Bio Program and of the Universidad
Nacional de Colombia, Caribbean Headquar-
ters. Undoubtedly. “This Expedition was quite
a voyage to the heart of the great Caribbean”.
Contribution # 571 of CECIMAR.
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