Etymology
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super- 
word-forming element meaning "above, over, beyond," from Latin super (adverb and preposition) "above, over, on the top (of), beyond, besides, in addition to," from *(s)uper-, variant form of PIE root *uper "over." In English words from Old French, it appears as sur-. The primary sense seems to have shifted over time from usually meaning "beyond" to usually meaning "very much," which can be contradictory. E.g. supersexual, which is attested from 1895 as "transcending sexuality," from 1968 as "very sexual."
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anti- 

word-forming element of Greek origin meaning "against, opposed to, opposite of, instead," shortened to ant- before vowels and -h-, from Old French anti- and directly from Latin anti-, from Greek anti (prep.) "over, against, opposite; instead, in the place of; as good as; at the price of; for the sake of; compared with; in opposition to; in return; counter-," from PIE *anti "against," also "in front of, before" (from root *ant- "front, forehead," with derivatives meaning "in front of, before"), which became anti- in Italian (hence antipasto) and French.

It is cognate with Sanskrit anti "over, against," and Old English and- (the first element in answer). A common compounding element in Greek, in some combinations it became anth- for euphonic reasons. It appears in some words in Middle English but was not commonly used in English word formations until modern times. In a few English words (anticipate, antique) it represents Latin ante.

In noun compounds where it has the sense of "opposed to, opposite" (Antichrist, anti-communist) the accent remains on the anti-; in adjectives where it retains its old prepositional sense "against, opposed to," the accent remains on the other element (anti-Christian, anti-slavery).

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-ard 
also -art, from Old French -ard, -art, from German -hard, -hart "hardy," forming the second element in many personal names, often used as an intensifier, but in Middle High German and Dutch used as a pejorative element in common nouns, and thus passing into Middle English in bastard, coward, blaffard ("one who stammers"), etc. It thus became a living element in English, as in buzzard, drunkard. The German element is from Proto-Germanic *-hart/*-hard "bold, hardy," from PIE root *kar- "hard."
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bi- 
word-forming element meaning "two, having two, twice, double, doubly, twofold, once every two," etc., from Latin bi- "twice, double," from Old Latin dvi- (cognate with Sanskrit dvi-, Greek di-, dis-, Old English twi-, German zwei- "twice, double"), from PIE root *dwo- "two."

Nativized from 16c. Occasionally bin- before vowels; this form originated in French, not Latin, and might be partly based on or influenced by Latin bini "twofold" (see binary). In chemical terms, it denotes two parts or equivalents of the substance referred to. Cognate with twi- and di- (1).
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in- (1)
Origin and meaning of in-
word-forming element meaning "not, opposite of, without" (also im-, il-, ir- by assimilation of -n- with following consonant, a tendency which began in later Latin), from Latin in- "not," cognate with Greek an-, Old English un-, all from PIE root *ne- "not."

In Old French and Middle English often en-, but most of these forms have not survived in Modern English, and the few that do (enemy, for instance) no longer are felt as negative. The rule of thumb in English has been to use in- with obviously Latin elements, un- with native or nativized ones.
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re- 

word-forming element meaning "back, back from, back to the original place;" also "again, anew, once more," also conveying the notion of "undoing" or "backward," etc. (see sense evolution below), c. 1200, from Old French re- and directly from Latin re- an inseparable prefix meaning "again; back; anew, against."

Watkins (2000) describes this as a "Latin combining form conceivably from Indo-European *wret-, metathetical variant of *wert- "to turn." De Vaan says the "only acceptable etymology" for it is a 2004 explanation which reconstructs a root in PIE *ure "back."

In earliest Latin the prefix became red- before vowels and h-, a form preserved in redact, redeem, redolent, redundant, redintegrate, and, in disguise, render (v.). In some English words from French and Italian re- appears as ra- and the  following consonant is often doubled (see rally (v.1)).

The many meanings in the notion of "back" give re- its broad sense-range: "a turning back; opposition; restoration to a former state; "transition to an opposite state." From the extended senses in "again," re- becomes "repetition of an action," and in this sense it is extremely common as a formative element in English, applicable to any verb. OED writes that it is "impossible to attempt a complete record of all the forms resulting from its use," and adds that "The number of these is practically infinite ...."   

Often merely intensive, and in many of the older borrowings from French and Latin the precise sense of re- is forgotten, lost in secondary senses, or weakened beyond recognition, so that it has no apparent semantic content (receive, recommend, recover, reduce, recreate, refer, religion, remain, request, require). There seem to have been more such words in Middle English than after, e.g. recomfort (v.) "to comfort, console; encourage;" recourse (n.) "a process, way, course." Recover in Middle English also could mean "obtain, win" (happiness, a kingdom, etc.) with no notion of getting something back, also "gain the upper hand, overcome; arrive at;" also consider the legal sense of recovery as "obtain (property) by judgment or legal proceedings." 

And, due to sound changes and accent shifts, re- sometimes entirely loses its identity as a prefix (rebel, relic, remnant, restive, rest (n.2) "remainder," rally (v.1) "bring together"). In a few words it is reduced to r-, as in ransom (a doublet of redemption), rampart, etc.

It was used from Middle English in forming words from Germanic as well as Latin elements (rebuild, refill, reset, rewrite), and was used so even in Old French (regret, regard, reward, etc.).

Prefixed to a word beginning with e, re- is separated by a hyphen, as re-establish, re-estate, re-edify, etc. ; or else the second e has a dieresis over it: as, reëstablish, reëmbark, etc. The hyphen is also sometimes used to bring out emphatically the sense of repetition or iteration : as, sung and re-sung. The dieresis is not used over other vowels than e when re is prefixed : thus, reinforce, reunite, reabolish. [Century Dictionary, 1895]
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pre- 

word-forming element meaning "before," from Old French pre- and Medieval Latin pre-, both from Latin prae (adverb and preposition) "before in time or place," from PIE *peri- (source also of Oscan prai, Umbrian pre, Sanskrit pare "thereupon," Greek parai "at," Gaulish are- "at, before," Lithuanian prie "at," Old Church Slavonic pri "at," Gothic faura, Old English fore "before"), extended form of root *per- (1) "forward," hence "beyond, in front of, before."

The Latin word was active in forming verbs. Also see prae-. Sometimes in Middle English muddled with words in pro- or per-.

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de- 

active word-forming element in English and in many verbs inherited from French and Latin, from Latin de "down, down from, from, off; concerning" (see de), also used as a prefix in Latin, usually meaning "down, off, away, from among, down from," but also "down to the bottom, totally" hence "completely" (intensive or completive), which is its sense in many English words.

As a Latin prefix it also had the function of undoing or reversing a verb's action, and hence it came to be used as a pure privative — "not, do the opposite of, undo" — which is its primary function as a living prefix in English, as in defrost (1895), defuse (1943), de-escalate (1964), etc. In some cases, a reduced form of dis-.

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inter- 
word-forming element used freely in English, "between, among, during," from Latin inter (prep., adv.) "among, between, betwixt, in the midst of" (also used extensively as a prefix), from PIE *enter "between, among" (source also of Sanskrit antar, Old Persian antar "among, between," Greek entera (plural) "intestines," Old Irish eter, Old Welsh ithr "among, between," Gothic undar, Old English under "under"), a comparative of root *en "in."

A living prefix in English from 15c. and used with Germanic as well as Latinate words. Spelled entre- in French; most words borrowed into English in that form were re-spelled 16c. to conform with Latin except entertain, enterprise. In Latin, spelling shifted to intel- before -l-, hence intelligence, etc.
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a- (1)

prefix or inseparable particle, a relic of various Germanic and Latin elements.

In words derived from Old English, it commonly represents Old English an "on, in, into" (see on (prep.)), as in alive, above, asleep, aback, abroad, afoot, ashore, ahead, abed, aside, obsolete arank "in rank and file," etc., forming adjectives and adverbs from nouns, with the notion "in, at; engaged in." In this use it is identical to a (2).

It also can represent Middle English of (prep.) "off, from," as in anew, afresh, akin, abreast. Or it can be a reduced form of the Old English past participle prefix ge-, as in aware.

Or it can be the Old English intensive a-, originally ar- (cognate with German er- and probably implying originally "motion away from"), as in abide, arise, awake, ashamed, marking a verb as momentary, a single event. Such words sometimes were refashioned in early modern English as though the prefix were Latin (accursed, allay, affright are examples).

In words from Romanic languages, often it represents reduced forms of Latin ad "to, toward; for" (see ad-), or ab "from, away, off" (see ab-); both of which by about 7c. had been reduced to a in the ancestor of Old French. In a few cases it represents Latin ex.

[I]t naturally happened that all these a- prefixes were at length confusedly lumped together in idea, and the resultant a- looked upon as vaguely intensive, rhetorical, euphonic, or even archaic, and wholly otiose. [OED]
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