Beneficial Indigenous Organisms (BIM)

topic posted Tue, August 8, 2006 - 1:19 PM by  conrad
from Gil A. Carandang

Lacto Bacilli

One of the major workhorse beneficial indigenous microorganism used in natural farming is lacto bacilli. This particular beneficial microorganism is popularly used in composting that specifically arrest foul odors associated with anaerobic decomposition. Lactic acid bacteria thrive and feed on the ammonia released in the decomposition normally associated with foul odors. So if you need to decompose or ferment wastes less foul odors, lactic acid bacteria is the specific bacteria to use. Its application in organic farming is enormous. In aquaculture, one of the problem is related to water quality. Poor water quality stresses the fish which in turn stunts their growth and affects their health. This is very evident specially on high density and tank aquaculture. The ammonia produced through fish excretions pollute the water and stress the fish. With regular addition of this beneficial microorganisms to the water, this ammonia problem is minimized, if not fully arrested. It helps hasten or complete the denitrification or converting wastes into forms not harmful to fish.

Spraying diluted solution of lactic acid bacteria serum to the plant and soil helps plant growth and makes them more healthy. As it is applied to the soil or the leaves, these beneficial bacteria aid in the decomposition process, thus allowing more food to be available and assimilated by the plant.

Lactic acid bacteria is also known to produce enzymes and natural antibiotics aiding effective digestion and has antibacterial properties, including control of salmonella and e. coli. To farmers, what are observed are the general health of the plants and animals, better nutrient assimilation, feed conversion and certain toxins eliminations.

Here’s a simple method of collecting this type of microorganism. Lactic acid bacteria can be collected from the air. Pour rice wash (solution generated when you wash the rice with water) on a container like plastic pot with lid. Allow air gap at least 50-75% of the container. The key here is the air space. Cover the (not vacuum tight, allowing air still to move into the container) container with lid loosely. Put the container in a quiet area with no direct sunlight. Allow the rice was to ferment for at least 5-7 days. Lactic acid bacteria will gather in 5-7 days when temperature is 20-25 degrees C. Rice bran will be separated and float in the liquid, like a thin film, smelling sour. Strain and simply get the liquid. Put this liquid in a bigger container and pour ten parts milk. The original liquid has been infected with different type of microbes including lacto bacilli. And in order to get the pure lacto bacilli, saturation of milk will eliminate the other microorganisms and the pure lacto bacilli will be left. You may use skim or powdered milk, although fresh milk is best. In 5-7 days, carbohydrate, protein and fat will float leaving yellow liquid (serum), which contain the lactic acid bacteria. You can dispose the coagulated carbohydrate, protein and fat, add them to your compost pile or feed them to your animals. The pure lactic acid bacteria serum can be stored in the refrigerator or simply add equal amount of crude sugar (dilute with 1/3 water) or molasses. Do not use refined sugar as they are chemically bleached and may affect the lactic acid bacteria. The sugar or molasses will keep the lactic acid bacteria alive at room temperature. One to one ratio is suggested although sugar, regardless of quantity is meant simply, serving as food for the bacteria to keep them alive. Now, these lactic acid bacteria serum with sugar or molasses will be your pure culture. To use, you can dilute this pure culture with 20 parts water. Make sure water is not chemically treated with, like chlorine. Remember, we are dealing with live microorganisms and chlorine can kill them. This diluted form 1:20 ratio will be your basic lactic acid bacteria concoction. Two to four tablespoons added to water of one gallon can be used as your basic spray and can be added to water and feeds of animals. For bigger animals, the 2-4 tablespoons of this diluted lactic acid bacteria serum should be used without diluting it further with water. Lactic acid bacteria serum can be applied to plant leaves to fortify phyllosphere microbes, to soil and compost. Of course, it will help improve digestion and nutrient assimilation for animals and other applications mentioned before. For any kind of imbalance, be it in the soil or digestive system, lacto bacilli can be of help.

One of the popular beneficial microorganism innoculant sfrom Japan (EM) contains lactic acid bacteria as its major component, including photosynthetic bacteria, yeasts, actinomycetes and fermenting fungi. These are pure culture imported from Japan and can be subcultured through the use of sugar or molasses. These other microbes can be cultured in several ways by farmers themselves.

Forest Beneficial Microorganisms

One technique in culturing other beneficial microorganism is getting them fro your local aged forest. One way is finding a healthy old robust tree in your local forest. Check the humus litter around the tree. The tree should have accumulated real deep humus, litter, compost of at least 2 feet to 1 yard deep. In this area through observation, we can deduce that soil fertility and microbial biodiversity are high. Our goal is to trap and culture these diversed, aged beneficial indigenous microorganisms. The technique that we use in trapping these microorganisms is the use of carbohydrate like cooked rice. Microorganisms will be attracted to food. So generally, what we do is to put the cooked rice on a flatter container with lid. For example, you can use a plastic lunch box and add about an inch of cooked rice allowing air space in the container. What is important here is a larger area to trap those microorganisms. It is suggested that you cover this container with metal netting or equivalent protecting it from animals like rats that may undig your container once you bury it in the litter, humus of your local forest. In 2-10 days (relative to temperature), you may undig your container and will notice contamination of microorganisms like white and other color molds on the cooked rice. The cooked rice has been infected now with microorganisms of your local forest. The next step is to add 1/3 amount of crude sugar or molasses to the infected cooked rice. After a week, the concoction will look like sticky, liquidy rice. You may then add equal amount of crude sugar or molasses to keep it for storage, arresting microbial activities, in a cooler area. To use, you may dilute this serum with 20 parts water. This diluted form shall then serve as your basic forest microorganisms. You may strain it and put in a container.

Another version of trapping similar forest microorganisms is simply getting the litter, humus and spreading them sparingly to the top your cooked rice. Forest leaf molds can also be used. The same procedure will be followed as described in the culture of local forest microorganisms.

Bamboo Microorganisms

Another method of gathering microorganism is through burying your container with cooked rice on bamboo plants litter. Apparently, bamboo through observation and experience in the East, attracts powerful beneficial microorganisms as the roots of the bamboo exude sugary substances that attract beneficial microorganisms. The same procedure is followed as described before in its culture.

Plant Specific Microorganisms

An equal specific method is trapping beneficial microorganisms of specific plants you want to grow or growing. For example, if you want to trap and culture beneficial microorganisms from rice, you should then select healthy, vigorous rice plant, cut them and put inverted cooked rice container over the cut rice plant. Again, beneficial microorganisms specific to rice will be attracted to the cooked rice. You can use this technique to any other plant of choice and the same procedure of culture will be used as previously described.

Rhizobium Nitrogen-Fixing Bacteria

One of the most popular nitrogen-fixing bacteria is rhizobium. It is amazing that when we coat our legumes with these specific bacteria, legumes grow well and more nitrogen is fixed on the soil. Amazingly enough, basic culture of these beneficial bacteria is simple. Once we have seen those nodules created by the bacteria fixing nitrogen on the roots of the legumes, we can assume that there are lots of these rhizobia and nitrogen fixed. Just pull out the legumes plants on a very specific stage, especially towards their flowering/fruiting stage. A simple method of culture is simply get the soil with these leguminous bacteria and mix with crude sugar with equal ratio of crude sugar. Rhizobium bacteria will proliferate feeding on the sugar and thus can be mixed with your next batch of legume seeds for inoculation. Our concoction or recipe of beneficial indigenous microorganism (BIM) is 50% lactic acid bacteria and the rest is 50% of the other microorganisms cultured. So you may use 1part forest microorganism, 1 part bamboo microorganism and 1 part specific plant microorganism mixed with 3 parts or 50% lacto bacilli. The more diversed microbes, the better. However, we will still use 50% of the total beneficial indigenous microorganisms to be lactic acid bacteria. The rest you can experiment and make your own observations and formulations. I cannot really tell you specifically what microbes we get from the different sources we have mentioned. As a rule, I only use the above BIM for plants. For animals, I use just pure lacto bacilli for we have isolated this as described. We have used the bamboo microorganisms for fermenting feeds to be fed to animals.

Different type of microorganisms thrive on different type of foods. As you can see, we use principally carbohydrates and sugars. But it will be equally important that we provide these beneficial indigenous microorganisms with other nutrients. In fact, we mix or add fermented plant extracts (fermented plant and fruit juices), ginger-garlic nutrients, brown rice vinegar and fish amino acid. That’s why in most instances, we mix these beneficial indigenous microorganisms with bionutrients to make it more effective.


In the creation of biological nutrients, bionutrients, the basic process is the traditional fermentation. Fermentation process is a better system than simple extraction like boiling the plant materials, through infusion like making tea. In the United States, where compost tea is getting popular in organic agriculture, compost is made into tea, sugar or molasses are added, fermented to increase microbial population. A simple general formula or recipe in fermentation can be done for plants. For example, seaweeds. If you simply infuse seaweeds (which are quite difficult to breakdown, therefore hard to extract active ingredients), you may not get a more potent extracted active ingredients. If you ferment the same materials by adding sugar or molasses, it is easily broken down (biologically) by microorganisms and thus making nutrient more available. Microorganisms get their energy from sugar in fermenting the materials. Most healthy foods are fermented foods. Through fermentation, food are easily broken down, enzymes created, nutrition improved. That’s the reason why fermented foods like yogurt or kimchi (Korean pickles) are more nutritious than plain milk or vegetables.

In making bionutrients, the simple formula is to add 1/3 crude sugar or molasses and mixed with materials to be fermented and extracted. For example, let’s take papaya fruit fermented extract. We chop as thinly as possible ripe papaya, unwashed and unpeeled. We then add 1/3 crude sugar or molasses to the total weight or approximate volume of the papaya materials. Put the materials with at least 50-75% air gap and cover loosely with a lid and let it ferment for at least a week. After a week, you will notice some molds and microbial infections and will start smelling sweet, sour and alcoholic. The materials are then strained and liquid generated will be your pure fruit papaya extract. You can dilute this with 20 parts water. This diluted form can be used as bionutrient, using 2-4 tablespoons per gallon of water. Again, this extract can be added to animal drinking water and feeds, to compost pile or sprayed/watered to plants leaves and roots. This will be a good source of nutrient for plants or animals, and also for our beneficial indigenous microorganisms. Papaya extract is good source of enzyme pappain, beta-carotene and Vitamin C for example. So extract any plant material and just try to find out what kind of nutrients they have you can use for animal and plant nutrition. Should the materials you intend to use for extraction do not have much moisture (as compared to our papaya fruit example), you may add water enough to the level that will moisten all the materials.

Specific bionutrients, fermented plant and other material extracts we have used to a great success and you can adopt for their specific use:

Kangkong (water spinach) Fermented Extract

This is essentially used as growth promotant. Kangkong is sometimes called water spinach. It is a kind of vegetable that typically grows in fresh water. It can also grow in highly moist soil. It s basic characteristic is it grows very fast, similar to the rapid growth of kelp in the seas. To the natural farmers, this kind of plant or similar plant for that matter have natural growth promotant. In the scientific agricultural parlance, we speak of natural growth hormones like gibberellins, auxins and cytokinins. Plants that grow fast will have a better concentrations of these natural growth hormones. By observation, kangkong or kelp or even mugwort will fall on this category. Thus, axillary buds of kangkong, plants like cucumber, squash and watermelon will be good materials to ferment for this purpose. Once these are fermented, active ingredients extracted, you may use this to spray and/or water your plants. You will notice a great improvement in the growth of your plants.

Banana-Squash-Papaya (BSP) Fermented Extract

One of the major fermented extract we use for plant flowering and fruiting, specially for vegetables, are extracts from banana, squash and papaya. Apparently, these materials have high level of potassium especially banana, and beta carotene. Although I have not tried a similar recipe using materials readily available here in the US, I will presume that materials substitute can be used. For your own experimentation, you can possibly use comfrey, squash and carrot. Le me know if they will work. In the Philippines, when we induce flowering of mangoes, conventional agriculture use potassium nitrate. We have tried with success natural materials high in nitrogen and potassium. Interesting enough, our local organic farmers have experimented using seaweed extract in inducing flowering of mangoes. Isn’t it seaweed extract have lots of natural growth hormones and trace elements, and good source of nitrogen and potassium? Check out the kinds of materials you can ferment and use to induce growth, flowering and fruiting.

Fish Amino Acid

As a general rule, the higher the protein of the materials, when composted or fermented, the higher the nitrogen. We use a lot of fish scraps to generate high nitrogen on our fish extracts. Here in the US, fish emulsion is pretty popular. Again, on basic fermentation of this material, we use crude sugar or molasses, third ratio of the fish scraps. I personally like using molasses than crude sugar not just for cost considerations, but molasses minimizes those fishy odors. I have added lactic acid bacteria in fermenting these fish scraps that arrest the foul odors very evident of fish emulsion foliar fertilizers.

Calcium Phosphate

A lot of agriculture advisers have used calcium phosphate for better plant growth, health, pest and disease controls. Natural farmers use this bionutrient very specific. Under the theory of Nutrioperiodism developed by a Japanese horticulturist, Yasushi Inoue in the 1930’s, plants and animals need a very specific nutrient relative to the stage of their development. In the plant, there is the essential vegetative growth , changeover and the reproductive periods. In animals, like humans, there is the infantile, juvenile and adulthood. It is not only critical to provide the right nutrient at the right stage of the development, but also critical to use or apply specific nutrient of calcium phosphate in the juvenile or changeover period. For the plant, for example, we know that nitrogen is critical on the vegetative stage as potassium is critical in the flowering and fruiting stages. It is however, the changeover period that is most critical that will determine the quality of the final reproductive stage. At this stage, an additional nutrient is badly needed by the plant. And this is calcium phosphate. Calcium phosphate is good for plants’ “morning sickness”. It is the stage that additional baby needs to be fed or the process where flower/fruit is about to come. Ash made from soybean stems are excellent for this purpose.

Here is a simple, natural method of generating calcium phosphate. Get eggshells and roast them enough to generate some good ashes. Afterwhich, dip these roasted eggshells on about equal visual volume of vinegar. Allow it to sit for a couple of weeks until eggshells are practically broken down by the vinegar acids. You may use this diluted 20 parts water and can be sprayed or watered to the plants during the changeover period.

When this is applied to that changeover period, it will improve plant health and productivity. The use of calcium phosphate is important to natural farmers. This however, does not mean that we shall forget the nutrient timing application of other critical nutrients for plant growth both macro and micro nutrients, given at the right stages and combinations.

We consider this very important bionutrient needed by the plants used by natural farmers.

Ginger-Garlic Extract

The original recipe of the natural farmers of Korea use not only the ginger and garlic materials, but also Chinese herbs like Angelica acutiloba, Glycurrhiza uralensis and Cinnamomum loureirii. These Chinese herbs have one basic common denominator, they are good for digestion. We have used simply equal amount of ginger and garlic, less these Chinese herbs. This is our natural antibiotics we use for plants and animals.

Remember the high level of sulfur on garlic? It is a good fungicide. The ginger-garlic extract is quite different from the plant extracts we have discussed. We soak the chopped up ginger and garlic in beer or wine overnight or 12 hours. Then we add 1/3 crude sugar and let it ferment for a couple of days like 5-7 days. They we add alcohol which stabilizes and arrests fermentation. The alcohol should be at least 40% proof. The active ingredients of the ginger and garlic is extracted in finale with the use of alcohol similar to herbal tincture we are familiar with in homeopathy. Remember that ginger and garlic are highly medicinal and highly nutritious. We have used them as natural antibiotics and in preventive medicine. We have used this concoction on chicks and chickens and have made them healthy throughout. Of course, we also use them when we see animal weakening and when they are sick. We have used them on fungal problems of plants. We have used them for rheumatism. The uses are enormous both for plants and animals. The potency of your plant extracts are relative to active ingredients that are available from the plants you are extracting. Most importantly, the part of the plants. For example, the energy on the plant part is most concentrated on the seed, fruit, leaf and other parts of the plants, to that general order. Seed is where the plant procreate itself. By simply adding moisture and heat, seed will germinate and will derive its nutrient for growth from its own seed. What natural farmers are saying is that the energy or nutrition is more potent on the seed, fruit will be second and on the leaf third. That’s the reason why when we ferment seeds like grain, our dilution for use is 1:1000 instead of 1:500. This is just a guideline.

Sometimes, you can use more diluted form but with more frequent applications. There is really no clear cut rule. Things have to be based on experimentations, experiences and observations.

Designer Compost

Improved, more potent, otherwise know as bokashi in Japan is essentially naturally fortified with macro and micro nutrients, or bionutrients and biodiversed beneficial indigenous microorganisms.

Here is a typical recipe we use in the Philippines:
- Rice Bran 10 kilos
- Copra Meal 20 kilos
- Coco Peat 20 kilos
- Chicken Manure 30 kilos
- Charcoal Dust 20 kilos
- BIM* 1 liter
- Molasses 1 kilo
- Bionutrient 1 liter
• Beneficial Indigenous Microorganism

Similar recipe can be adopted here in the US, replacing or substituting similar materials above. A basic formulation that I use is very similar to the general formulation I use for animal feeds. Basic formulation consists of 80% carbohydrate, 17% protein and 3% Vitamin/Mineral. When we apply this formulation to our designer compost, we likewise find 80% carbon source, 17% nitrogen and 3% trace elements, as a matter of rule.

For the rice bran, you can substitute wheat or any inexpensive grain bran. Our copra meal or the materials residue after extracting oil from coconut can be substituted with corn meal or inexpensive meal that has ample amount of protein. Soybean is a good substitute or any other legumes. Coco peat can be substituted with peat moss. I will probably use sawdust or any materials high in carbon and lignin. Any kind of grain hay can also be used. Any kind of animal manure can likewise be used. It is however ideal to use chicken manure because of its more potent ingredients as far as macro nutrients like nitrogen, phosphorous, potassium and calcium, not to mention its good source of micro nutrients. Charcoal dust is used for it is a basic carbon which natural farmers find a good media or substrate for proliferation of beneficial microorganisms. And of course, the use of molasses (as sugar source) that really improve the population of microorganisms since it is a basic food source for them. Bionutrient will be a concoction of high level of macro and micro nutrients. Depending on your goal, like higher level of potassium for example, we kind of emphasize our bionutrient with fermented extract high in potassium. Likewise, if your intention is to have a more potent level of nitrogen, our bionutrient shall emphasize high level of nitrogen source like fish emulsion or plant leguminous extract. You can likewise add and ferment rock dusts. The general key however, in this designer compost formulation or bokashi is potent biodiversed beneficial indigenous microorganisms and bionutrients. You may adjust this basic recipe relative to your requirements and observations. When you try to analyze our Philippine basic recipe, you will notice that it is pretty much satisfying the general formulation I have mentioned as to carbohydrate-carbon, protein-nitrogen and vitamin / mineral - micronutrients ratios. The real key to this recipe is providing a greater population of biodiversed beneficial indigenous microorganisms and bionutrients, with lots of carbon and organic matter. I bet you, it will make also good compost tea.

I have deliberately included this bokashi in this presentation to show that we natural farmers consider beneficial indigenous microorganisms and bionutrients of great importance for soil fertility and animal health. As we establish a healthy fertile soil, we observe healthy plants, animals, community and planet. Living soil is dependent on biodiversed microbial populations and nutrients that create a stable, balance and harmonious soil that determines healthy plants and animals. As we “farm with air, water and sunlight”, and nutrient, we likewise farm with microorganisms vital to soil fertility.

As sustainable agriculture is based on soil fertility to perpetually sustain production, so is soil fertility is determined by diversity and balance of microbial ecologies.
posted by:

Recent topics in "Effective Microorganisms (EM)"

Topic Author Replies Last Post
Free EM Teacher's Manual and New EM Newsletter Unsubscribed 5 October 11, 2011
effective organism 1 formula for mushroom cultivation gautam 0 October 8, 2011
Cookin with EM Unsubscribed 0 March 20, 2009
New flavor Unsubscribed 2 March 20, 2009
using EM to prepare fruiting substrate for oyster mushrooms Unsubscribed 1 March 20, 2009