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g
C
h
l
a
L
-
1
0
0.02
0.04
0.06
0.08
0.1
30.10
St. 4
31.10
St. 5
2.11
St. 6
4.11
St. 7
Prochlorophytes
Diatoms
Cyanobacteria
Prasinophytes type 1
Pelagococcus
Haptophytes type 6
Cryptophytes
Dinoflagellates
Prasinophytes type 3
Fig. 2. Biomass of the phytoplankton population calculated by CHEMTAX in the surface in the southern Indian Ocean. The x-axis shows the sampling dates and the
stations. The dates sampled in between stations are sampled with the seawater intake system described in Material and methods.
L. Schl uter et al. / Deep-Sea Research I 58 (2011) 546556 549
Naked dinoagellates of unknown trophy were present in most
samples (Table 3). Assigning nutrition strategy to this group is
challenging. Regression between the biomass of dinoagellate
estimated in microscope averaged over 10 and 60 m against the
biomass of dinoagellates determined by HPLC from all stations
except station 2 revealed that that the slope of the regression line
was not different from 0 (N6; P0.31, when including dino-
agellates of unknown trophy and P0.79 when excluding dino-
agellates of unknown trophy). Station 2 was not included in this
analysis as the food web at this station appeared very different
from the remaining stations. As the dinoagellates of unknown
trophy did not add any signicance to the relationship between
the biomass estimated by HPLC and microscopy, respectively, the
dinoagellates of unknown trophy were most likely either mixo-
trophic with a low pigment content or strictly heterotrophic.
4. Discussion
4.1. Phytoplankton in relation to the oceanography of the southern
Indian Ocean
The different phytoplankton communities measured were reect-
ing the different water masses of the southern Indian Ocean. The rst
station sampled, station 1, was inuenced by the Agulhas Current
with a very deep mixed surface layer, down to 300 m (Visser et al.,
submitted), where total Chl a was 0.4 mg L
1
at the surface. Flagel-
lates and athecate dinoagellates were detected by microscopy
(Table 3). HPLC measurements suggested that phytoplankton was
in fact dominated by haptophytes, pelagophytes, and cyanobacteria.
Prasinophytes Types 1 and 3 were also important at this station. This
is comparable to the results of Not et al. (2008), who also found
cyanobacteria, i.e., Synechococcus, and picoeucaryotes (pelagophytes,
haptophytes, and chlorophytes/prasinophytes) to dominate at the
more coastal, nutrient-rich stations in the Indian Ocean. At station
2 sub-Antarctic waters of the Southern Ocean were encountered,
reducing the surface temperatures and the salinity (Visser et al.,
submitted). The Southern Ocean is one of the high-nutrient low-
chlorophyll (HNLC) regions, but at this station the total Chl a
concentration reached relatively high values for oceanic regions of
1.4 mg Chl a L
1
in the surface (Fig. 2) with a Chl a
max
of 1.7 mg L
1
in
30 m depth. The high Chl a concentration was accompanied by
increased proportions of diatoms and dinoagellates in the phyto-
plankton population detected by both methods (Tables 2 and 3). This
is commonly found in areas with a supply of new nutrients since
these opportunistic taxa are particularly well suited to take advantage
of excess nutrients (Fogg, 1991; Claustre, 1994). High nutrient
concentrations were indeed measured from the surface throughout
Table 1
Output ratios of pigment/chlorophyll a from the CHEMTAX calculations for the four different data sets analyzed (see text for details).
Chl c
3
Chl c
2
Chl c
1
MV Chl c
3
Peri 19
0
-but Fuco Neox Pras Viol 19
0
-hex Allo Zeax Lut Chl b
South-western Indian Ocean, surface
Prasinophytes Type 3 0.111 0.377 0.050 0.020 0.784
Dinoagellates 0.456 0.698
Cryptophytes 0.065 0.307
Haptophytes Type 6 0.195 0.084 0.036 0.006 0.032 0.781
Pelagophytes 0.131 0.512 1.108 0.222
Prasinophytes Type 1 0.091 0.111 0.038 0.054 0.793
Cyanobacteria 1.378
Diatoms 0.032 0.026 0.307
Prochlorophytes 0.466 0.147
South-western Indian Ocean, from and below chlorophyll a maximum
Prasinophytes Type 3 0.113 0.458 0.079 0.018 0.679
Dinoagellates 0.289 0.711
Cryptophytes 0.060 0.172
Haptophytes Type 6 0.140 0.162 0.007 0.008 0.184 1.900
Pelagophytes 0.365 0.176 0.471 0.085
Prasinophytes Type 1 0.068 0.063 0.005 0.005 0.539
Cyanobacteria 0.650
Diatoms 0.140 0.012 0.809
Prochlorophytes 0.086 0.338
South-eastern Indian Ocean, surface
Prasinophytes Type 3 0.123 0.488 0.074 0.016 0.905
Dinoagellates 0.271 0.735
Cryptophytes 0.069 0.184
Haptophytes Type 6 0.289 0.199 0.079 0.014 0.212 1.483
Pelagophytes 0.188 0.334 0.821 0.095
Prasinophytes Type 1 0.058 0.157 0.045 0.124 0.350
Cyanobacteria 2.692
Diatoms 0.105 0.014 0.370
Prochlorophytes 0.732 0.096
South-eastern Indian Ocean, from and below chlorophyll a maximum
Prasinophytes Type 3 0.065 0.402 0.071 0.014 0.601
Dinoagellates 0.247 0.748
Cryptophytes 0.105 0.265
Haptophytes Type 6 0.106 0.132 0.006 0.009 0.102 1.949
Pelagophytes 0.769 0.344 1.059 0.095
Prasinophytes Type 1 0.236 0.219 0.014 0.011 0.313
Cyanobacteria 0.781
Diatoms 0.163 0.029 0.719
Prochlorophytes 0.156 1.184
Abbreviations: Chl, chlorophyll; MV, monovinyl; peri, peridinin; 19
0
-but, 19
0
-butanoyloxyfucoxanthin; fuco, fucoxanthin; neox, neoxanthin; pras, prasinoxanthin; viol,
violaxanthin; 19
0
-hex, 19
0
-hexanoyloxyfucoxanthin; allo, alloxanthin; zeax, zeaxanthin; lut: lutein.
L. Schl uter et al. / Deep-Sea Research I 58 (2011) 546556 550
the mixed layer, and preceding days of rough weather conditions had
intruded newnutrients, and possibly iron enrichment fromthe Crozet
Plateau (Pollard et al., 2007) to the area (Visser et al., submitted).
Station 3 was also inuenced by the Southern Ocean waters and at
this station prochlorophytes appeared for the rst time in the samples
and Chl a was relatively low, i.e., 0.3 mg L
1
in the surface waters,
with prevalence of haptophytes particularly in the surface. Further-
more, pelagophytes and cyanobacteria were abundant (Fig. 3), indi-
cating that this station was located in a transition area on the
boundary to subtropical water. Stations 4 and 5 were located within
the subtropical gyre with little mixing and general oligotrophic
conditions. This was reected in the composition and biomass of
phytoplankton with low surface concentrations of Chl a and a
maximum of 0.2 mg Chl a L
1
at 100 m depth at both stations,
showing dominance of prochlorophytes, cyanobacteria, and small
agellates (Fig. 3) typical for oligotrophic areas where regenerated
nutrients are the only nutrient source. The last two stations, 6 and 7,
were located in tropical waters inuenced by down-welling of the
Leeuwin Current. However, the presence of pennate diatoms at
station 7 suggests a complex exchange of ocean water and coastal
water masses that inject Si to the water column. Particularly
prochlorophytes dominated at these two stations (Figs. 2 and 3),
but also pelagophytes, haptophytes, and cyanobacteria were abun-
dant. These cells were not detected by the microscopy method used,
by which only larger cells were identied. The Chl a
max
at station
7 located on the shelf break inuenced by coastal conditions was
situated higher up in the water column at 60 m and picoprocaryotes
(cyanobacteria and prochlorophytes) contributed 4567% to the total
Chl a biomass in and above Chl a
max
(Table 2). This is comparable to
the range of 5565% found by Hanson et al. (2007) for picoprocar-
yotes in deep Chl a maximum (DCM) in the Leeuwin Current in
coastal waters of western Australia in close vicinity of our station 7,
with haptophytes as the other primary contributor (2132%). How-
ever, contrary to the present study the phytoplankton population in
0
50
100
150
200
0
m
g Chl a L
-1
St. 1
0
50
100
150
200
0
m
g Chl a L
-1
St. 2
0
50
100
150
200
0
m
St. 3
0
50
100
150
200
0
m
St. 4
0
50
100
150
200
0
m
St. 5
0
50
100
150
200
0
m
St. 6
0
50
100
150
200
0
m
Prasinophytes type 3
Dinoflagellates
Cryptophytes
Haptophytes type 6
Pelagophytes
Prasinophytes type 1
Cyanobacteria
Diatoms
Prochlorophytes
St. 7
0.05 0.1 0.15 0.1 0.2 0.3 0.4 0.5 0.6
0.02 0.04 0.06 0.08 0.04 0.08 0.12 0.16
0.01 0.02 0.03 0.04 0.05 0.06 0.07
0.04 0.08 0.12 0.16
0.05 0.1 0.15 0.2
Fig. 3. Depth distribution of the biomass of the individual phytoplankton groups as Chl a concentration calculated by CHEMTAX at the stations sampled.
L. Schl uter et al. / Deep-Sea Research I 58 (2011) 546556 551
the surface waters of the study of Hanson et al. (2007) was dominated
by cyanobacteria and haptophytes, while prochlorophytes were
virtually absent. Hanson et al. (2007) did, however, not determine
the diagnostic pigment of prochlorophytes, DV Chl a, by HPLC. Instead
this group was calculated by CHEMTAX using the pigments zeax-
anthin and Chl b. Nevertheless, Barlow et al. (2007) did indeed
measure DV Chl a, indicative of prochlorophytes, and the DV
Chl a/total Chl a ratio was 0.4 in the surface transect of the Indian
Ocean at 201S, the station closest to the Australian coast placed at
approx. 1131E, close to our station 7 (1151E, 201S). This is comparable
to the present study where this ratio was 0.47 at station 7. Barlow
et al. (2007) sampled only surface water and found dominance by
prokaryotes and low total Chl a biomass down to 0.02 mg
total Chl a L
1
at a transect more northerly (201S) than ours. In the
oligotrophic SE Indian Ocean we measured total Chl a concentrations
from 0.043 to 0.086 mg Chl a L
1
in the surface (Fig. 2). Barlow et al.
Table 2
Contribution in percentage of the different phytoplankton groups to chlorophyll a biomass obtained by CHEMTAX.
Station Depth
(m)
Prasinophytes
Type 3
Dinoagellates Cryptophytes Haptophytes
Type 6
Pelagophytes Prasinophytes
Type 1
Cyanobacteria Diatoms Prochlorophytes
1 10 9 0 5 38 12 11 9 15 0
30 8 0 5 18 28 11 24 6 0
60 9 0 7 17 29 11 21 5 0
100 9 0 8 16 30 10 21 6 0
2 10 1 16 3 27 9 7 2 36 0
30 3 13 5 15 29 11 3 23 0
60 5 3 3 13 32 6 1 35 0
100 5 13 6 18 22 12 3 18 0
3 10 0 1 1 62 10 0 9 5 13
30 0 0 1 26 22 1 25 13 11
60 0 0 0 13 26 0 32 0 29
100 4 0 1 12 56 4 8 0 15
4 10 3 2 8 12 10 9 10 7 39
30 3 2 6 17 16 9 7 6 36
60 3 2 6 18 19 9 4 1 39
100 1 1 2 15 18 5 19 0 40
5 10 3 3 10 29 16 12 6 0 20
30 3 2 8 23 21 11 8 0 25
60 3 1 5 28 26 9 2 0 26
100 2 1 2 21 31 6 11 5 22
6 10 3 2 7 15 11 9 13 3 38
30 3 3 7 19 9 9 13 2 36
60 3 3 8 21 14 8 11 3 29
100 1 1 2 10 16 2 20 1 47
7 10 2 3 3 9 4 7 17 8 47
30 2 3 2 9 5 6 13 6 54
60 7 3 4 11 16 5 11 8 34
80 4 3 3 11 25 4 10 11 29
100 2 2 5 16 33 4 3 15 20
Average 3 3 5 19 20 7 12 8 31
Table 3
Biomasses of autotrophic protists across the Indian Ocean and the sum of all groups at 10 and 60 m depths. Units mg C L
1
.
Diatoms Flagellates45 lm Autotrophic thecate
dinoagellates
Autotrophic athecate
dinoagellates
Athecate dinoagellates of
unknown trophy
Sum of all
groups
Station 10 m 60 m 10 m 60 m 10 m 60 m 10 m 60 m 10 m 60 m 10 m 60 m
1 0.09 0.07 0.03 1.00 0.47 0.46 0.05 0.05 1.44 1.73 2.08 3.30
2 6.74 133.92 9.15 34.35 31.91 57.17 0.82 1.31 56.06 53.41 104.68 280.16
3 0.23 0.12 7.75 3.25 0.93 1.35 0.12 0.13 4.31 3.05 13.34 7.90
4 0.02 0.01 2.22 10.97 0.57 1.09 0.09 0.11 2.53 3.81 5.44 16.00
5 0.00 0.08 4.02 3.31 0.65 1.27 0.06 0.03 2.49 2.93 7.23 7.63
6 0.09 0.14 3.15 0.02 0.16 0.64 0.06 0.23 1.04 6.95 4.51 7.99
7 0.44 2.55 0.02 0.10 0.77 1.00 0.07 0.11 2.79 3.04 4.08 6.81
L. Schl uter et al. / Deep-Sea Research I 58 (2011) 546556 552
(2007) found total Chl a of 0.09 mg L
1
, which is comparable to this
study. Prochlorophytes were, however, even more concentrated in
the DCM (Fig. 3) where total Chl a reached 0.4 mg Chl a L
1
.
4.2. The use of CHEMTAX for determining phytoplankton
composition and biomass
Analyzing phytoplankton pigments by HPLC gives the advan-
tage of getting information on the whole phytoplankton commu-
nity by one method, which cannot be achieved in one single step
by other methods. However, the subsequent application of pro-
grams like CHEMTAX requires subjective interpretations on
which phytoplankton groups and pigment/Chl a ratios to load
into CHEMTAX. In order to diminish the uncertainty on these
taxonomical interpretations, Higgins et al. (in press) have made a
guide for quantitative chemotaxonomic interpretation of pigment
data. Briey, it is important to obtain as much information as
possible on which phytoplankton groups to expect in the samples,
i.e., also by using alternative methods to pigment analysis, since
the results of the CHEMTAX analyses rely on the input to the
program. Furthermore, the pigment ratios and phytoplankton
groups chosen to load into CHEMTAX should reect the phyto-
plankton communities sampled. It is recommended to divide the
pigment data into subsamples of populations with equal environ-
mental conditions (light adaptations, water mass properties, etc.),
and carefully select the initial pigment/Chl a ratios, using multiple
starting pigment ratios. Then to run the CHEMTAX calculations
repeatedly by optimizing the input ratios in order to minimize the
residual root mean square error (Higgins et al., in press). These
approaches were used in this study. The pigment data set was
divided to represent two oceanographic regions, SE and SW
Indian Ocean. Although the phytoplankton populations, detected
at the different stations sampled indicated, that even more sub-
grouping of this large ocean could be considered, the number of
samples was limited and we found it more important to divide
the dataset vertically.
The choice of which phytoplankton groups to load into
CHEMTAX was supported by microscopic enumerations made
by inverted microscope, showing presence of diatoms, dinoa-
gellates, and unidentiable agellates (Table 3). Peridinin is a
diagnostic marker of dinoagellates, but the pigment method
only found peridinin containing dinoagellates to be a signicant
part of the phytoplankton population at station 2, and absent or
sporadically present in the rest of the samples (Fig. 3, Table 2).
Some dinoagellates have acquired their chloroplast and pig-
ments from other taxa and contain, e.g., fucoxanthin and its
derivates (De Salas et al., 2003). If present, these organisms will
have been included in the haptophytes by the CHEMTAX analyses.
The dinoagellate genera Ornithocercus, Histioneis, Parahistioneis
and Citharistes, Amphisolenia and Triposolenia observed by micro-
scopy had ectosymbiotic cyanobacteria, while the latter two also
had endosymbionts of eukaryotic origin (Farnelid et al., 2010;
Tarangkoon et al., 2010). Although, ecto- and endosymbiotic
mixotrophy is found in a wide range of oceanic dinoagellate
species, their abundance is o2 cells L
1
(Tarangkoon et al., 2010)
and thus of minor importance. The discrepancy between the
HPLC pigment method and microscopic analysis may be
explained by heterotrophic nutrition in the dinoagellates, which
may be dominant yet invisible to pigment analysis, except for
what they have consumed (Higgins et al., in press). Hence,
we suggest that most of the dinoagellates enumerated in the
microscope as dinoagellates of unknown trophy were most
likely heterotrophic.
Prochlorophytes, cryptophytes, and prasinophytes Type 3
were detected by their unique diagnostic pigments DV Chl a,
alloxanthin, and prasinoxanthin, respectively. Cyanobacteria are
usually detected by the non-specic pigment zeaxanthin, which
was present at all stations. Since Synechococcus has long been
documented by ow cytometry as an important constituent of the
prokaryotic algal community in many oceanic regions, including
the Indian Ocean (Not et al., 2008), this group was included in the
CHEMTAX calculations. The presence of prasinophytes
Type 1 (including chlorophytes) could be identied by pig-
ment ratios as mentioned in the results.
The presence of 19
0
-hex indicated presence of haptophytes.
Zapata et al. (2004) investigated pigments of haptophytes and
found 8 different types based on their pigment content, where
3 types contained 19
0
-hex. One of the pigments, MV Chl c
3
which
was detected in this study, has been found to be strongly
associated with the globally important species Emiliania huxleyi
and one other species, Gephyrocapsa oceanica, grouped as hapto-
phytes Type 6 in Zapata et al. (2004). MV Chl c
3
was detected in
most samples in this study along with 19
0
-hex and 19
0
-but, and
haptophytes Type 6 was consequently included in CHEMTAX
(Table 1). This group was found to constitute an important
part of the phytoplankton population in the Indian Ocean, and
particularly in the SW Indian Ocean haptophytes Type 6 tended
to dominate in the surface waters, but were also abundant
in the deeper parts of the water column in the SE Indian Ocean
(Fig. 3). E. huxleyi has been found to dominate the coccolithophore
populations in various regions of the worlds oceans (e.g., Boeckel
et al., 2006; Lipsen et al., 2007; Siegel et al., 2007; Gravalosa
et al., 2008), and this study shows that haptophytes Type 6,
i.e., E. huxleyi and G. oceanica, are important in the Indian Ocean
too. Flagellates were grouped as unknown agellates by micro-
scopy. Since acidic Lugols iodine was used to x the samples, the
coccoliths were most likely dissolved (Sournia, 1978), which
made the identication of coccolithophorids impossible.
Haptophytes types 15 do not contain the characteristic
pigments 19
0
-hex and 19
0
-but (Zapata et al., 2004) and if present,
they were included in the groups of diatoms by CHEMTAX. An
examination of the diatoms carbon/Chl a (C/Chl a) ratios showed
that these were varying with an average of 132 and when
excluding station 2, 60 m, the C/Chl a ratio was in average 27
(data not shown). The very high C/Chl a ratio at station 2, 60 m
together with a generally low photosynthetic activity (Visser
et al., submitted), indicates a decline of the bloom encountered
at this station. Although uncertainty exists on counting and
biomass estimations made by microscopy and particularly dia-
toms of varying C/Chl a ratios (Schl uter and Mhlenberg, 2003),
the potential inclusion of haptophytes Types 15 in the group
diatoms by the CHEMTAX calculations did not lead to low C/Chl
a ratios of diatoms. Thus haptophytes types 15 seem to have
been of minor importance in the Indian Ocean. Furthermore,
except at station 2 diatoms determined by pigment analysis
usually only constituted a few percentages and 15% at maximum
(Table 2), which also indicates that any haptophytes types
15 included in diatoms by CHEMTAX were of insignicant
importance.
The 19
0
-hex/19
0
-but-ratios of all data in the present data set
were 2.471.1 (average7standard deviation, n223). E. huxleyi
and G. oceanica contain no or very little 19
0
-but and according
to Zapata et al. (2004) the Type 6 haptophytes, which were found
to contain 19
0
-but, had 19
0
-hex/19
0
-but-ratios of at least 50. This
indicates that other 19
0
-but containing algae were present in the
samples of this study. In the study of Andersen et al. (1996)
pelagophytes were found to be an important phytoplankton
group both by pigments and electron microscopy in the Atlantic
and Pacic Oceans, and subsequently, the pelagophytes have been
identied by 19
0
-but in various oligotrophic waters (e.g., Bidigare
and Ondrusek, 1996; Steinberg et al., 2001; Suzuki et al., 2002;
L. Schl uter et al. / Deep-Sea Research I 58 (2011) 546556 553
Marty et al., 2008). Consequently, pelagophytes were included in
the CHEMTAX calculations, and were found to comprise an
important part, on average 20%, of the phytoplankton population
in the Indian Ocean, particularly in the deeper parts of the ocean
(Table 2). This agreed well with results of Not et al. (2008) from a
more northerly transect in the Indian Ocean, where pelagophytes
were found by HPLC to constitute a similar part of the phyto-
plankton population. As found in other oceans (e.g., Andersen
et al., 1996; Steinberg et al., 2001) haptophytes and pelagophytes
were the most abundant eucaryotes in the Indian Ocean con-
tributing profoundly to the Chl a
max
(Fig. 3, Table 2). In the
present study pelagophytes tended to be placed even lower in the
water column than the haptophytes, a pattern also found in a few
other studies, e.g., in the Atlantic Ocean (Veldhuis and Kraay,
2004) and in the Mediterranean (Marty et al., 2008).
4.3. Effects of applying QA threshold
The QA threshold procedure applied to the data set in this
study, where the baseline noise was slightly increased due to the
noise from the power supply generated by the vessel, resulted in
an improved CHEMTAX solution. This is apparent from an
evaluation of the residuals (pigment content unexplained by the
CHEMTAX solution as root mean square, data not shown). The
residuals from the CHEMTAX analyses, carried out after the QA
threshold procedure was applied, were up to 15 times lower
when compared to the residuals achieved before applying LOD
values to the results, thus proving a better data t when LOD
values were applied. The reason for this is that the QA procedure
reduced the uncertainties contributed by false negatives and
false positives, which occurs when pigments are quantied near
the method detection limit (Hooker et al., 2005). In the present
data set these pigments were secondary pigments like neox-
anthin, violaxanthin, MV Chl c
3
, and lutein. Instead of zero values
in the spread sheet, when such pigments could not be detected
and quantied, the LOD values applied caused that CHEMTAX
included these pigments in the calculations. For example when
low concentrations of prasinoxanthin were detected the acces-
sory pigments neoxanthin and lutein of prasinophytes Type
3 were often below the detection limit. Applying LOD values
instead of zeroes for these secondary pigments improved the
CHEMTAX calculations, thus causing a better data t.
4.4. Presence of other zeaxanthin containing organisms in the
southern Indian Ocean
Analyses of organisms not retained by the GF/F lters used to
lter the samples revealed that all autotrophic pico-sized algae
were in fact collected by the lters, since no Chl a was detected on
0.2 mm lters after passage of the GF/F lters. The 0.2 mm lters
did, nevertheless, retain some zeaxanthin-containing organisms,
probably a marine bacterium such as Paracoccus zeaxanthinifaciens
(formerly Flavobacterium; Berry et al., 2003). In a recent study in
Antarctic waters (Wright et al., 2009) high zeaxanthin concentra-
tions caused an unrealistic high contribution of cyanobacteria by
the CHEMTAX calculations, and bacteria rather than cyanobac-
teria were the most likely source to zeaxanthin. However, in the
Antarctic waters the bacteria were retained by GF/F lters
(Wright et al., 2009), indicating that the size of such pigmented
marine bacteria is variable or that the Antarctic bacteria were
attached to aggregates such as mucilage. If such larger sized
bacteria also were present in the Indian Ocean they would have
inuenced the CHEMTAX calculations and increased particularly
the biomass of the cyanobacteria, which was calculated from the
zeaxanthin concentration (Table 1). The zeaxanthin/Chl a ratios of
cyanobacteria obtained by the CHEMTAX calculations were 1.38
in the SW Indian Ocean, but 2.69 in the SE Indian Ocean (Table 1),
and the latter value is higher than ratios of high light treated cells
of Synechococcus sp. cultures (Schl uter et al., 2000; Henriksen
et al., 2002). Although zeaxanthin is a photo-protective pigment
and zeaxanthin/Chl a ratios did show 2 and 5 times changes as
function of depth/light intensity for cyanobacteria and prochlor-
ophytes, respectively (Table 1), the high zeaxanthin/Chl a ratio of
cyanobacteria in the SE Indian Ocean indicated that other zeax-
anthin containing cells may have been retained on the GF/F lters
too. CHEMTAX calculated a variable contribution of cyanobacteria
with an average of 12% (Table 2). In the oligotrophic parts of the
Pacic Ocean the biomass of Synechococcus was found to always
constitute less than 10% by ow cytometry (Campbell et al., 1994,
1997; Blanchot et al., 2001). Of the few studies of picoplankton
conducted in the oligotrophic parts of the Indian Ocean Not et al.
(2008) used ow cytometry to enumerate cells of Prochlorococcus
and Synechococcus. Although no biomass estimations were made
the cell numbers appear comparable to the results of Blanchot
et al. (2001) from the Pacic Ocean. A seasonal succession
towards prokaryote dominance during high temperatures and
irradiance in summer has been demonstrated across the global
ocean basins in the subtropical southern hemisphere (Barlow
et al., 2007). While the study of Not et al. (2008) was carried out
during late fall, this study was carried out during late spring and a
higher prokaryotic proportion of phytoplankton should be
expected from station 4 and onwards where oligotrophic condi-
tions prevailed. Unfortunately, no ow cytometry measurements
were conducted, and in some occasions the cyanobacteria con-
stituted up to 20% (Table 2) of the phytoplankton population,
which might indicate that zeaxanthin from non-photosynthetic
bacteria could have biased the biomass of cyanobacteria deter-
mined by CHEMTAX. The presence and size range of such
zeaxanthin containing bacteria that might interfere with deter-
mination of cyanobacteria by CHEMTAX denitely need special
attention in future investigations.
5. Conclusion
The difference of the pigment/Chl a ratios (Table 1) and the
large variety in the phytoplankton communities encountered
across the southern Indian Ocean reects the complexity of this
under-sampled ocean, which is inuenced by conuences of
water currents, upwelling and down-welling resulting in produc-
tive mixing areas to oligotrophic regions. The microscopy method
used in this study (inverted microscope) was providing only
limited, yet important, information on 45 mm algae. Valuable
information on the phytoplankton communities in the southern
Indian Ocean was obtained by combining the results from the two
phytoplankton identication methods. It could be deduced that
most of the dinoagellate community of unknown trophy in the
oligotrophic regions of the Indian Ocean were likely heterotrophic
species. For the different subtypes of haptophytes and pelago-
phytes the CHEMTAX setup could be justied by using the
information on diatom biomasses achieved by microscopy. In
order to obtain more information on the pico-sized phytoplank-
ton populations special microscopy methods are needed, which,
however, seldom are feasible when many samples need to be
analyzed. Since the pigment method certainly has limitations too
(e.g., Higgins et al., in press), and microscopic analyses also
introduce taxonomical misinterpretations even by competent
taxonomists (Culverhouse et al., 2003; Culverhouse, 2007), a
combination of several methods is warranted when examining
phytoplankton communities like those sampled in the southern
Indian Ocean.
L. Schl uter et al. / Deep-Sea Research I 58 (2011) 546556 554
Acknowledgments
The sampling was conducted during the third Danish Galathea
expedition. We thank the Captain of HMDS Vdderen, Carsten
Schmidt, and his crew for excellent assistance in connection with
our sampling. The project was supported by grants from Knud
Hjgaards Fond and the Danish Natural Sciences Research Coun-
cil. We are grateful to Simon Wright, Australian Antarctic Divi-
sion, for receiving CHEMTAX ver. 1.95, and to Jacob L. Hyer,
Danish Meteorological Institute for preparing Fig. 1. The present
work was carried out as part of the Galathea3 expedition under
the auspices of the Danish Expedition Foundation. This is
Galathea3 contribution no. P77.
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