Conversion of Squid Pen to Homogentisic Acid via Paenibacillus sp. TKU036 and the Antioxidant and Anti-Inflammatory Activities of Homogentisic Acid

The culture supernatant of Paenibacillus sp. TKU036, a bacterium isolated from Taiwanese soils, showed high antioxidant activity (85%) when cultured in a squid pen powder (SPP)-containing medium at 37 °C for three days. Homogentisic acid (2,5-dihydroxyphenylacetic acid, HGA) was isolated and found to be the major antioxidant in the culture supernatant of the SPP-containing medium fermented by Paenibacillus sp. TKU036. Tryptophan was also present in the culture supernatant. The results of high-performance liquid chromatography (HPLC) fingerprinting showed that HGA and tryptophan were produced via fermentation but did not pre-exist in the unfermented SPP-containing medium. Neither HGA nor tryptophan was found in the culture supernatants obtained from the fermentation of nutrient broth or other chitinous material, i.e., medium containing shrimp head powder, by Paenibacillus sp. TKU036. The production of HGA via microorganisms has rarely been reported. In this study, we found that squid pen was a potential carbon and nitrogen source for Paenibacillus sp. Tryptophan (105 mg/L) and HGA (60 mg/L) were recovered from the culture supernatant. The isolated HGA was found to have higher antioxidant activity (IC50 = 6.9 μg/mL) than α-tocopherol (IC50 = 17.6 μg/mL). The anti-inflammatory activity of the isolated HGA (IC50 = 10.14 μg/mL) was lower than that of quercetin (IC50 = 1.14 μg/mL). As a result, squid pen, a fishery processing byproduct, is a valuable material for the production of tryptophan and the antioxidant and anti-inflammatory HGA via microbial conversion.


Introduction
Chitin is one of the most abundant biopolymers in the world, and these natural polymers have versatile properties, such as biocompatibility and non-toxicity. Among the natural chitinous resources, fishery processings (shrimp shells, crab shells, and squid pens) have the highest chitin content. Conventionally, chitin is obtained from shrimp shells, crab shells, and squid pens using a strong alkali or an inorganic acid for deproteinization or demineralization, respectively [1]. However, these chemical processes have several drawbacks, such as the creation of pollutant alkali or acid liquid.

Screening and Identification of Strain TKU036
Over 350 bacterial strains isolated from the soils of Northern Taiwan were cultivated at 37 • C in a medium containing 1% squid pen powder (SPP). Among these strains, strain TKU036 exhibited the strongest antioxidant activity and was chosen for more intensive examination. Based on morphological and biochemical studies, as well as 16S rDNA sequences [7], this strain was confirmed to be Paenibacillus sp. Analytical profile index (API) identification was further used to identify the species name [7]; however, no match was found. Therefore, the TKU036 strain was identified as Paenibacillus sp. and was used for further investigation.

Comparing the Non-Exopolysaccharide Antioxidants Produced by Paenibacillus Species
Many strains of Paenibacillus, such as P. mucilaginosus TKU032 [7], Paenibacillus sp. TKU023 [18], and P. macerans TKU029 [19], have been reported as the sole C/N source for the production of exopolysaccharides (EPOs) using SPP, and some of these EPOs showed antioxidant activity. In this study, EPOs were also found in the culture broth of SPP-containing medium fermented by Paenibacillus sp. TKU036 (data not shown). To investigate whether the antioxidant activity was from the EPOs, the EPO-containing culture supernatant of strain TKU036 underwent ethanol precipitation (final concentration of 70%, v/v) to remove the EPOs. The obtained EPO-deficient culture supernatants were than lyophilized to remove the ethanol and were used for analyzing antioxidant activity. The EPO-deficient culture supernatant of Paenibacillus sp. TKU036 showed high antioxidant activity (85%). The culture conditions for the production of antioxidants and the isolation of the non-EPO antioxidants were studied subsequently.

Culture Conditions for Antioxidant Production
Different concentrations (0.5%, 1.0%, and 1.5% w/v) of squid pen powder (SPP), shrimp head powder (SHP), and cicada shell powder (CSP) were used as the sole C/N source for the production of antioxidant by Paenibacillus sp. TKU036. The effects of the medium volume, the medium pH, Mar. Drugs 2016, 14, 183 3 of 10 and the culture temperature on antioxidant activity were also examined. Commercial nutrient broth (NB) medium, which does not contained chitin, was used for comparison. The result showed that the highest antioxidant activity (85%) was obtained by fermentation within the 0.5% SPP-containing medium (100 mL medium in 250 mL Erlenmeyer flask) at 37 • C in a reciprocal shaker at 150 rpm for three days.
The results of this study are remarkably different from those of other reports, such as studies of Bacillus subtilis using red bean [20], Aspergillus awamori and Aspergillus oryzae using soybean [21], Aspergillus usami using sesamin [22], A. awamori using black bean [23], and Monascus pilosus using potato dextrose broth [24] as a C/N source for antioxidant production.
A novel antioxidant (serraticin) with antitumor activity was isolated from the culture supernatant of SPP-containing medium fermented by Serratia ureilytica TKU013 [8]. S. ureilytica TKU013 used SPP (1.5%) for the production of the antioxidant, but the maximal antioxidant activity was 82% after four days of fermentation [25]. In this study, Paenibacillus sp. TKU036 used a cheaper C/N source of 0.5% SPP and produced a higher antioxidant activity (85%) in a shorter time (three days). The studied culture condition was then used for antioxidant production.

Isolation of Antioxidant Compounds
As described in the Materials and Methods section below, the 95% ethanol extract was separated into 14 fractions by column chromatography. All the fractions were evaluated for antioxidant activity using a scavenging 2,2-diphenyl-1-picrylhydrazyl (DPPH) radical test. As shown in Figure 1, Fraction 4 had the highest antioxidant activity.
Mar. Drugs 2016, 14, 183 3 of 9 medium, which does not contained chitin, was used for comparison. The result showed that the highest antioxidant activity (85%) was obtained by fermentation within the 0.5% SPP-containing medium (100 mL medium in 250 mL Erlenmeyer flask) at 37 °C in a reciprocal shaker at 150 rpm for three days.
The results of this study are remarkably different from those of other reports, such as studies of Bacillus subtilis using red bean [20], Aspergillus awamori and Aspergillus oryzae using soybean [21], Aspergillus usami using sesamin [22], A. awamori using black bean [23], and Monascus pilosus using potato dextrose broth [24] as a C/N source for antioxidant production.
A novel antioxidant (serraticin) with antitumor activity was isolated from the culture supernatant of SPP-containing medium fermented by Serratia ureilytica TKU013 [8]. S. ureilytica TKU013 used SPP (1.5%) for the production of the antioxidant, but the maximal antioxidant activity was 82% after four days of fermentation [25]. In this study, Paenibacillus sp. TKU036 used a cheaper C/N source of 0.5% SPP and produced a higher antioxidant activity (85%) in a shorter time (three days). The studied culture condition was then used for antioxidant production.

Isolation of Antioxidant Compounds
As described in the Materials and Methods section below, the 95% ethanol extract was separated into 14 fractions by column chromatography. All the fractions were evaluated for antioxidant activity using a scavenging 2,2-diphenyl-1-picrylhydrazyl (DPPH) radical test. As shown in Figure 1 At a concentration of 200 μg/mL, Fraction 4 showed approximately 99% antioxidant activity. Fraction 4 was further purified with a preparative HPLC column. In total, five sub-fractions (4-1, 4-2, 4-3, 4-4, and 4-5) ( Figure 2) were obtained, and the antioxidant activity of these fractions were medium, which does not contained chitin, was used for comparison. The result showed that the highest antioxidant activity (85%) was obtained by fermentation within the 0.5% SPP-containing medium (100 mL medium in 250 mL Erlenmeyer flask) at 37 °C in a reciprocal shaker at 150 rpm for three days. The results of this study are remarkably different from those of other reports, such as studies of Bacillus subtilis using red bean [20], Aspergillus awamori and Aspergillus oryzae using soybean [21], Aspergillus usami using sesamin [22], A. awamori using black bean [23], and Monascus pilosus using potato dextrose broth [24] as a C/N source for antioxidant production.
A novel antioxidant (serraticin) with antitumor activity was isolated from the culture supernatant of SPP-containing medium fermented by Serratia ureilytica TKU013 [8]. S. ureilytica TKU013 used SPP (1.5%) for the production of the antioxidant, but the maximal antioxidant activity was 82% after four days of fermentation [25]. In this study, Paenibacillus sp. TKU036 used a cheaper C/N source of 0.5% SPP and produced a higher antioxidant activity (85%) in a shorter time (three days). The studied culture condition was then used for antioxidant production.

Isolation of Antioxidant Compounds
As described in the Materials and Methods sect into 14 fractions by column chromatography. All the using a scavenging 2,2-diphenyl-1-picrylhydrazyl (D 4 had the highest antioxidant activity. At a concentration of 200 µg/mL, Fraction 4 showed approximately 99% antioxidant activity. Fraction 4 was further purified with a preparative HPLC column. In total, five sub-fractions (4-1, 4-2, 4-3, 4-4, and 4-5) ( Figure 2) were obtained, and the antioxidant activity of these fractions were analyzed ( Figure 3). As shown in Figure 3, Fraction 4-4 showed the highest antioxidant activity (IC 50 of 6.9 µg/mL) compared with those of Fraction 4-5 (62.8 µg/mL, which showed a little antioxidant activity due to containing minor 4-4) and the other three fractions, as well as the antioxidant activity of the positive control, α-tocopherol (17.6 µg/mL). The results showed Fraction 4-4 contained a potential antioxidant that was valuable for further identification.
Mar. Drugs 2016, 14, 183 4 of 9 analyzed ( Figure 3). As shown in Figure 3, Fraction 4-4 showed the highest antioxidant activity (IC50 of 6.9 μg/mL) compared with those of Fraction 4-5 (62.8 μg/mL, which showed a little antioxidant activity due to containing minor 4-4) and the other three fractions, as well as the antioxidant activity of the positive control, α-tocopherol (17.6 μg/mL). The results showed Fraction 4-4 contained a potential antioxidant that was valuable for further identification.

Identification of HGA and Tryptophan by NMR
The chemical structures of the isolated compounds were elucidated using detailed spectroscopic analyses, including 1D ( 1 H NMR, 13   analyzed ( Figure 3). As shown in Figure 3, Fraction 4-4 showed the highest antioxidant activity (IC50 of 6.9 μg/mL) compared with those of Fraction 4-5 (62.8 μg/mL, which showed a little antioxidant activity due to containing minor 4-4) and the other three fractions, as well as the antioxidant activity of the positive control, α-tocopherol (17.6 μg/mL). The results showed Fraction 4-4 contained a potential antioxidant that was valuable for further identification.

Identification of HGA and Tryptophan by NMR
The chemical structures of the isolated compounds were elucidated using detailed spectroscopic analyses, including 1D ( 1 H NMR, 13 C NMR) and 2D NMR experiments ( 1 H-1 H COSY, HSQC, and HMBC), together with the spectroscopic comparisons of previously reported compounds. Fractions 4-4 and 4-5 were shown to contain HGA [26] and tryptophan [27], respectively ( Figure 4).
HGA  was obtained as a white amorphous powder. 1

Identification of HGA and Tryptophan by NMR
The chemical structures of the isolated compounds were elucidated using detailed spectroscopic analyses, including 1D ( 1 H NMR, 13 C NMR) and 2D NMR experiments ( 1 H-1 H COSY, HSQC, and HMBC), together with the spectroscopic comparisons of previously reported compounds. Fractions 4-4 and 4-5 were shown to contain HGA [26] and tryptophan [27], respectively ( Figure 4).
HGA  was obtained as a white amorphous powder. 1  HGA is an important intermediate in the metabolism of phenylalanine and tyrosine [28]. The production HGA via microorganisms has only been shown in a few reports, such as Aspergillus niger (using phenyl acetic acid as a C/N source) [29], Vibrio cholerae (using marine broth with 4 mM tyrosine as a C/N source) [30], and Yarrowia lipolytica (using tyrosine as a C/N source) [28]. Tryptophan is widely used in human food and medicine, as well as in animal feed. The production of tryptophan has been reported in two typical bacteria strains: Escherichia coli FB-04 (using glucose, yeast, tryptone, and citric acid as C/N sources) [31] and Corynebacterium glutamicum KY9218 (using sucrose, corn steep liquor, tyrosine, phenylalanine etc. as C/N sources) [32]. In this study, Paenibacillus sp. TKU036 cultured with SPP, a seafood processing, was used for the production of HGA and tryptophan and may have potential for further investigation. HGA is an important intermediate in the metabolism of phenylalanine and tyrosine [28]. The production HGA via microorganisms has only been shown in a few reports, such as Aspergillus niger (using phenyl acetic acid as a C/N source) [29], Vibrio cholerae (using marine broth with 4 mM tyrosine as a C/N source) [30], and Yarrowia lipolytica (using tyrosine as a C/N source) [28]. Tryptophan is widely used in human food and medicine, as well as in animal feed. The production of tryptophan has been reported in two typical bacteria strains: Escherichia coli FB-04 (using glucose, yeast, tryptone, and citric acid as C/N sources) [31] and Corynebacterium glutamicum KY9218 (using sucrose, corn steep liquor, tyrosine, phenylalanine etc. as C/N sources) [32]. In this study, Paenibacillus sp. TKU036 cultured with SPP, a seafood processing, was used for the production of HGA and tryptophan and may have potential for further investigation.

The Effect of HGA on Cytotoxicity and Anti-Inflammation
Nitric oxide (NO) is recognized as a key pro-inflammatory mediator that is involved in certain inflammatory disorders, including chronic hepatitis, pulmonary fibrosis, and rheumatoid arthritis [33]. In our previous study [3], we discovered chitosan oligomers with a low degree of polymerization that showed both antioxidant and anti-inflammatory activity. In this study, the anti-inflammatory activity of Fraction 4-4 (HGA) was estimated using an in vitro model: LPS-stimulated RAW 264.7 cells. The inhibition of LPS-stimulated NO secretion was due to anti-inflammatory activity. First, to examine the potential cell cytotoxicity induced by Fraction 4-4, a MTT assay was conducted. When RAW 264.7 macrophages were treated with Fraction 4-4 at concentrations of 0, 5, 10, 20, and 40 μg/mL, along with 1 μg/mL LPS, the resulting viabilities of RAW 264.7 cells were recorded and are summarized in Figure 5. The results of a statistical analysis indicated that treatment with Fraction 4-4 (40 μg/mL) had no noticeable toxic effect on cell growth when compared with the cell growth of the 0.05% DMSO treated group (100%). Fraction 4-4 (40 μg/mL) was capable of inhibiting NO production by 77.79% in LPS-stimulated cells. The IC50 value of Fraction 4-4, representing the anti-inflammatory effect, was 10.14 μg/mL ( Figure 5). A similar result was found when purchased HGA was used. Quercetin is a potent dietary antioxidant that also displays anti-inflammatory activity [34]. Thus, the anti-inflammatory activity (IC50) of quercetin was investigated. These results indicated that HGA exhibited an acceptable anti-inflammatory activity (IC50 = 10.14 μg/mL) compared with the antiinflammatory activity of quercetin (IC50 = 1.14 μg/mL).

The Effect of HGA on Cytotoxicity and Anti-Inflammation
Nitric oxide (NO) is recognized as a key pro-inflammatory mediator that is involved in certain inflammatory disorders, including chronic hepatitis, pulmonary fibrosis, and rheumatoid arthritis [33]. In our previous study [3], we discovered chitosan oligomers with a low degree of polymerization that showed both antioxidant and anti-inflammatory activity. In this study, the anti-inflammatory activity of Fraction 4-4 (HGA) was estimated using an in vitro model: LPS-stimulated RAW 264.7 cells. The inhibition of LPS-stimulated NO secretion was due to anti-inflammatory activity. First, to examine the potential cell cytotoxicity induced by Fraction 4-4, a MTT assay was conducted. When RAW 264.7 macrophages were treated with Fraction 4-4 at concentrations of 0, 5, 10, 20, and 40 µg/mL, along with 1 µg/mL LPS, the resulting viabilities of RAW 264.7 cells were recorded and are summarized in Figure 5. The results of a statistical analysis indicated that treatment with Fraction 4-4 (40 µg/mL) had no noticeable toxic effect on cell growth when compared with the cell growth of the 0.05% DMSO treated group (100%). Fraction 4-4 (40 µg/mL) was capable of inhibiting NO production by 77.79% in LPS-stimulated cells. The IC 50 value of Fraction 4-4, representing the anti-inflammatory effect, was 10.14 µg/mL ( Figure 5). A similar result was found when purchased HGA was used. Quercetin is a potent dietary antioxidant that also displays anti-inflammatory activity [34]. Thus, the anti-inflammatory activity (IC 50 ) of quercetin was investigated. These results indicated that HGA exhibited an acceptable anti-inflammatory activity (IC 50 = 10.14 µg/mL) compared with the anti-inflammatory activity of quercetin (IC 50 = 1.14 µg/mL).

Confirmation of HGA and Tryptophan Produced from SPP by Fermentation
The 95% ethanol extracts were extracted from the culture fermented supernatant of Paenibacillus sp. TKU036 and were then compared with the extract of unfermented medium via HPLC analysis. The results found that HGA and tryptophan appeared in the fermentation supernatant at Rt 12.75 min and at Rt 16.25 min, respectively, revealing that the two components did not pre-exist in the SPPcontaining medium (data not shown).
To confirm whether HGA and tryptophan were also produced using other chitin-containing materials as the sole C/N source, the 0.5% SHP-containing medium was also studied. Furthermore, nutrient broth (NB), a commercial medium for bacteria cultivation, was also tested. As shown in Figure 6, after fermentation by Paenibacillus sp. TKU036 for three days, no HGA and tryptophan were detected from the ethanol extract of the culture supernatant. To the best of our knowledge, there have been no reports of materials harmful to humans produced by Paenibacillus species [35]. The transformation of squid pen to functional foods of HGA and tryptophan via Paenibacillus sp. strain TKU036 may have the potential to be intensively investigated.

Confirmation of HGA and Tryptophan Produced from SPP by Fermentation
The 95% ethanol extracts were extracted from the culture fermented supernatant of Paenibacillus sp. TKU036 and were then compared with the extract of unfermented medium via HPLC analysis. The results found that HGA and tryptophan appeared in the fermentation supernatant at Rt 12.75 min and at Rt 16.25 min, respectively, revealing that the two components did not pre-exist in the SPP-containing medium (data not shown).
To confirm whether HGA and tryptophan were also produced using other chitin-containing materials as the sole C/N source, the 0.5% SHP-containing medium was also studied. Furthermore, nutrient broth (NB), a commercial medium for bacteria cultivation, was also tested. As shown in Figure 6, after fermentation by Paenibacillus sp. TKU036 for three days, no HGA and tryptophan were detected from the ethanol extract of the culture supernatant. To the best of our knowledge, there have been no reports of materials harmful to humans produced by Paenibacillus species [35]. The transformation of squid pen to functional foods of HGA and tryptophan via Paenibacillus sp. strain TKU036 may have the potential to be intensively investigated.

Confirmation of HGA and Tryptophan Produced from SPP by Fermentation
The 95% ethanol extracts were extracted from the culture fermented supernatant of Paenibacillus sp. TKU036 and were then compared with the extract of unfermented medium via HPLC analysis. The results found that HGA and tryptophan appeared in the fermentation supernatant at Rt 12.75 min and at Rt 16.25 min, respectively, revealing that the two components did not pre-exist in the SPPcontaining medium (data not shown).
To confirm whether HGA and tryptophan were also produced using other chitin-containing materials as the sole C/N source, the 0.5% SHP-containing medium was also studied. Furthermore, nutrient broth (NB), a commercial medium for bacteria cultivation, was also tested. As shown in Figure 6, after fermentation by Paenibacillus sp. TKU036 for three days, no HGA and tryptophan were detected from the ethanol extract of the culture supernatant. To the best of our knowledge, there have been no reports of materials harmful to humans produced by Paenibacillus species [35]. The transformation of squid pen to functional foods of HGA and tryptophan via Paenibacillus sp. strain TKU036 may have the potential to be intensively investigated.

Antioxidant Activity Assay
The antioxidant samples (1.2 mL) were mixed with 0.3 mL of a methanolic solution containing 0.75 mM DPPH radicals. The mixture was vigorously shaken and incubated for 30 min in the dark, and the absorbance was then measured at 517 nm against a blank [3]. The scavenging ability was calculated as described in our previous paper [3].

Screening of Antioxidant-Producing Strain
The bacteria were isolated from soil samples that were collected at different locations in Northern Taiwan. They were cultivated in a medium containing squid pen powder (SPP) (pH 7.2) supplemented with 0.05% MgSO 4 ·7H 2 O and 0.1% K 2 HPO 4 to screen for antioxidant activity. The strains were cultivated in a 250 mL Erlenmeyer flask that contained 50 mL of medium at 37 • C in a reciprocal shaker at 150 rpm for 1-2 days. The supernatants obtained via centrifugation were used for the estimation of antioxidant activity using the protocol described in our previous paper [7]. Strain TKU036, which showed the highest activity, was selected for further study.

Extraction and Isolation of HGA and Tryptophan
The culture supernatant (2 L) of Paenibacillus sp. TKU036 was lyophilized (5.824 g) and extracted via ultrasonication in 300 mL of 95% ethanol at 60 • C in triplicate. The extract was concentrated under reduced pressure. The obtained ethanol extract (2.4905 g) was dissolved in H 2 O, and it was loaded onto an open ODS column and eluted with 0%-60% MeOH in H 2 O (to maintain the acetic acid concentration at 0.4%), resulting in 14 fractions (Fractions 1 to 14). The tryptophan was found in Fractions 5 (0.1253 g) and 6 (0.0864 g). Fraction 4 was further purified via preparative HPLC, equipped with a 250 mm × 20 mm i.d. preparative Cosmosil 5C18-AR-II column (Nacalai Tesque, Kyoto, Japan) and a UV detector at 254 nm, and it was eluted with 13% ACN in H 2 O (0.4% acetic acid), yielding 5 fractions (Fractions 4-1 to 4-5). HGA (0.012 g) and tryptophan (0.008 g) were obtained from Fractions 4-4 and 4-5, respectively. In total, HGA (0.012 g) and tryptophan (0.21 g) were produced from 2 L of the culture supernatant (5.824 g) by employing the method described above. The recovery of HGA (60 mg/L) in this study was comparable to that of HGA in strawberry tree honey, which has been reported to contain HGA at a concentration of 414 mg/kL [19].

Conclusions
To efficiently reutilize seafood processings via microbial transformation, squid pen was used as the sole C/N source for screening antioxidant-producing bacteria from Taiwanese soils. The culture supernatant of strain TKU036 produced potential antioxidant activity and was identified as Paenibacillus species. The antioxidant compound in the culture supernatant was identified as HGA, which showed anti-inflammatory effects as well. Tryptophan was also identified in the culture supernatant. Neither HGA nor tryptophan was found in the unfermented SPP-containing medium or in other chitinous materials (shrimp head powder)-containing medium. The results showed that squid pen is a promising material for the production of antioxidants and anti-inflammatories by Paenibacillus sp. TKU036.
HGA showed higher antioxidant activity (IC 50 = 6.9 µg/mL) than α-tocopherol (IC 50 = 17.6 µg/mL). The anti-inflammation activity of HGA (IC 50 = 10.14 µg/mL) was lower than that of quercetin (IC 50 = 1.14 µg/mL). HGA has been reported as the most abundant phenolic compound in strawberry tree honey (414 mg/kg) [36]. The recovery of 60 mg of HGA per liter of culture supernatant, compared with that of strawberry tree honey, seems to have potential for HGA production.